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News amp Views
Issue 7
January 2016
INDIA ALLIANCE
We at the India Alliance wish you a very happy and prosperous 2016 There were many highlights and events last year which we
tried to bring to you through these newsletters our brand new website social media and emails We hope to be able to do the same this
year
The first issue of 2016 has announcements of our Fellowship schemes updates on funded research and other IA activities It also
features interesting article interviews and event announcements
Apart from our Fellows who are making waves in their fields we are also very fortunate to have distinguished scientists on our
fellowship selection committee We wish to congratulate our committee member Dr Amit Sharma (ICGEB New Delhi) for being awarded
the Infosys Award 2015 for ldquofor his pioneering contributions to deciphering the molecular structure at atomic level of key proteins
involved in the biology of pathogenesis of the malarial parasiterdquo In a move to encourage and support women scientists Department of
Biotechnology Government of India along with Biotechnology and Biological Research Council (BBRC) Economic and Social Research
Council (ESRC) and the Royal Society announced a program for women in STEM at JNU New Delhi earlier this month Details of the
program will be announced Feb end 2016
Last year ended with 25 Fellowships being awarded at the November 2015 round of interviews for Clinical and Public Health
Research Margadarshi and Intermediate Research (basic) Fellowship schemes bringing the total number of awards to 202 at 64
different institutions We are happy to welcome the new awardees to the India Alliance Family We are now accepting preliminary
applications for the Clinical and Public Health Research Fellowships 2016 Please check our website for the call for applications for our
Research Training Fellowship Senior and Intermediate Fellowship (Basic scheme) and Margadrashi Fellowship early next month
On the Public Engagement front we are very pleased to announce our support for the Art amp Science Project at Khoj International
Artists Association details of which can be found in this newsletter and on the Khoj website It promises to be a great platform for
interdisciplinary dialogue and exchange between scientists and artists and we encourage anyone interested to apply (artists) or get
involved (scientists) In an effort to sensitize public about pressing health issues India Alliance along with Public Health Foundation of
India will be organizing a Health discussion series (Voices for Health) where the public thought leaders and experts will be engaged in
a series of panel discussions in multiple Indian cities across the year More information on this series will be posted on our website in a
couple of weeks This issue also includes reports on a Public Lecture given by renowned cancer researcher and Noble Laureate Dr
Harold Varmus in December at NII New Delhi and the first one-day Foldscope workshop organized by the Department of
Biotechnology
On the Science Communication front we will be holding our biannual two-day SciComm workshop in Hyderabad on 21-22 March
2016 Applications for this workshop are now closed and selected participants will be informed shortly Our SciComm team will be
visiting Maharaja Sayajirao University of Baroda to hold the one-day SciComm101 workshop in March In an attempt to strengthen and
diversify its Science Communication activities India Alliance has tied up with Nature India and Nature Jobs to launch a new workshop
format which would focus on science writing communication and alternate science careers Please write to us if you would like to know
more about this workshop
In this issue we feature interviews of our Clinical and Public Health Research Fellowship Selection Committee member and eminent
geneticist Dr Aravinda Chakravarti Senior Fellow Dr Roop Malik who is working on motor proteins at TIFR Mumbai and Dr Sujatha
Reddy our Grants Adviser Heartfelt gratitude to them for sharing interesting and useful insights on their work and life In the piece
titled ldquoA Sponge Against a Swordrdquo Intermediate Fellow Dr Partho Sarothi Ray writes about the molecular underpinnings of cancer and
inflammation and the crosstalk between the two in the backdrop of his recently published research on RNA-binding proteins bdquoAsk the
Scientist‟ section is an attempt to make science more accessible and understandable and includes simple questions from non-scientists who
are keen to know more about scientific principles underlying life processes the human body etc In this issue questions on brain and its
functions are answered by our Fellows- Dr Venkatasubramanian Ganesan Dr Urvakhsh Mehta Dr Supratim Ray and Dr Nixon Abraham
A big thank you to all of them
Last but not the least thank you to our Early Career Fellow Dr Srinivas Marmamula for sharing the image for the cover which shows a
vision technician assessing vision in a woman in a remote rural area as part of public research project in Telangana initiated by L V
Prasad Eye Institute in India
Here‟s to a year of new possibilities explorations and discoveries
Best wishes
Sarah Iqbal PhD
Public Engagement Officer
EDITORIAL
1
CONTENTS
3 INDIA ALLIANCE CALL FOR APPLICATIONS
Clinical and Public Health Research Fellowships 2016
4 INDIA ALLIANCE RECOMMENDED FELLOWSHIP AWARDEES
Clinical and Public Health Research Fellowship Intermediate (Basic) Fellowship
5 IN CONVERSATION WITH
Dr Aravinda Chakravarti Director Center for Complex Disease Genomics amp Professor of Medicine
at Johns Hopkins University School of Medicine
7 SCIENCE COMMUNICATION
New Nature India-India Alliance workshop SciComm Hyderabad SciComm101 workshop
announcements
8 PUBLIC ENGAGEMENT CORNER
Art amp Science project Harold Varmus Lecture report Ask the Scientist
12 INDIA ALLIANCE FELLOW IN SPOTLIGHT
Dr Roop Malik Senior Fellow TIFR Mumbai
13 FEATURE ARTICLE
ldquoA Sponge Against a Sword rdquo
by Dr Partho Sarothi Roy Intermediate Fellow IISER Kolkata
15 INDIA ALLIANCE STAFF CORNER
Dr Sujatha Reddy Grants Adviser India Alliance
16 EXTERNAL EVENTS
First Foldscope Workshop in India- report Medicine Corner Exhibition Trick or Treat workshop
2
Eligibility
Eligibility limit covers the entire range of Clinical and Public
Health Research Fellowship schemes
bull No age or Nationality restrictions
bull The candidates need not be resident in India while
applying but should be willing to establish an
independent research career in India
bull Clinicians and Public health researchers do not require a
PhD to apply
bull This competition is open for clinicians and public health
researchers with up to 15 years of post-
MDMSMPHPhD or equivalent clinical public health
research experience
bull The Applicants are advised to choose the most
appropriate scheme suitable for them based on their
qualification research experience career trajectory and
track record Please refer to the guidance notes
provisions and mandate of the scheme for assessing your
eligibility on the website The Office reserves the right to
advice on the suitability of the scheme accordingly
Early Career Fellowship This scheme provides a unique
opportunity for those who have shown promise to pursue
research and wish to further their efforts to build a research
career under the supervision of a Fellowship
supervisor Guidance note Suitable for applicants in the final
year PhDMDMSMPH or have up to 4 years of relevant
experience
Intermediate Fellowship For those who have been
successful in building a track record of pursuing a cutting
edge research and wish to establish their own independent
clinicalpublic health research program in India Guidance
note Suitable for applicants with 4-7 years of relevant
experience
INDIA ALLIANCE FELLOWSHIP ANNOUNCEMENT
CALL FOR APPLICATIONS
Application forms are available on the India Alliance online
application System (IASys) at
httpsfellowshipswellcomedbtorgLoginaspx
Please visit our website for further information on the application process Please write to us with
queries to infowellcomedbtorg
3
CLINICAL AND PUBLIC HEALTH RESEARCH FELLOWSHIPS 2016
Preliminary Application Deadline 1 March 2016
India Alliance invites applications for three Fellowship schemes
Early Career Fellowships Intermediate Fellowships and Senior Fellowships
Senior Fellowship For those who have demonstrated their
potential to lead an independent research program and
want to expand it further to undertake pioneering research
Guidance note Suitable for applicants with 7-15 years of
relevant experience
Remit Full spectrum of biomedical science involving clinical
and public health research
Provisions
bull These Fellowships would encourage interested clinicians
to pursue their research goals in combination with their
clinical duties
bull Competitive personal support
bull Generous research support with flexibility to
accommodate requirements of clinical and public health
research
bull Flexibility to request additional support staff
bull Support training cost and research sabbatical
bull Funds for International training and travel
bull Opportunity to pursue a PhD on the India Alliance
funded research
Essentials on the application
bull A research proposal that seeks to answer an original
biomedical research question
bull A not-for-profit Host Institution in India that will
administer the Fellowship for the full duration of the
award A salaried position or commitment to a salaried
position at the Host Institution is not required
bull A Sponsor at the Host Institution who can guarantee
space and resources for the duration of the award
bull In case of an Early Career Fellowship a Fellowship
Supervisor who can guarantee access to laboratory
space and resources required for the project as well as
provide relevant scientific guidance for the tenure of the
Fellowship
CLINICAL AND PUBLIC HEALTH RESEARCH FELLOWSHIPS
Early Career Fellowships
Dr Jayanth Kumar Palanichamy All India Institute of Medical Sciences New Delhi
Dr Aparna Mukherjee All India Institute of Medical Sciences New Delhi
Dr Deepak Kamath St Johns National Academy Of Health Sciences Bangalore
Intermediate Fellowships
Dr Aparna Rao L V Prasad Eye Institute Bhubaneswar
Dr Abi Vanak Ashoka Trust for Research in Ecology and the Environment Bangalore
Dr Shivarama VaramballyNational Institute of Mental Health and Neurosciences Bangalore
Dr Rashmi Rodrigues St Johns National Academy Of Health Sciences Bangalore
Dr Mahesh Kate Christian Medical College Ludhiana
Research Training Fellowships
Ms Urvita Bhatia Sangath Porvorim
Dr Deepak Gautam All India Institute of Medical Sciences New Delhi
Dr Sumsum P Sunny Mazumdar Shaw Medical Center Bangalore
Dr Dhruva Ithal National Institute of Mental Health and Neurosciences Bangalore
Dr Rakshathi B National Institute of Mental Health and Neurosciences Bangalore
ANNOUNCEMENT
RECENTLY RECOMMENDED AWARDEES
BASIC RESEARCH FELLOWSHIPS
Intermediate Fellowships
Dr Sridharan Devarajan Indian Institute of Science Bangalore
Dr Nitin Gupta Indian Institute Of Technology Kanpur
Dr Sachin Kotak Indian Institute of Science Bangalore
Dr Aravind Penmatsa Indian Institute of Science Bangalore
Dr Siddhesh Shashikant Kamat Indian Institute of Science Education and Research Pune
Dr Mohan Joshi Centre for DNA Fingerprinting and Diagnostics Hyderabad
Dr Satish Khurana Indian Institute of Science Education and Research Thiruvananthapuram
Dr Pinky Kain Indian Institute of Technology Roorkee
Dr Santosh Chauhan Institute Of Life Sciences Bhubaneswar
India Alliance announced Fellowship Awardees of the Clinical and Public Health Research Fellowship
scheme and Intermediate Fellowship under the Basic Biomedical Research competition in December 2015
The interviews for these Fellowship schemes were held in November 2015
indicates institution that before this award did not have any India Alliance Fellow
4
MARGADARSHI FELLOWSHIP
Prof Satyajit Mayor National Centre for Biological Science Bangalore
IN CONVERSATION WITH
Dr Aravinda Chakravarti
Dr Aravinda Chakravarti is a Professor of Medicine Pediatrics Molecular Biology amp Genetics and Biostatistics and Director Center
for Complex Disease Genomics at the Johns Hopkins University School of Medicine and the Bloomberg School of Public Health He
also has a long association with the India Alliance as a member of its Clinical and Public Health Research Fellowship committee
What motivated you to become a scientist
I cannot say that it was any one person or one event or any one
point of time that led me to consider doing science Nor did I know
what being a scientist would entail or how one prepared to become
one I was not interested in science nor good at it or anything else for
that matter before the 9th grade But subsequently it was the
concreteness and logic of mathematics and the sciences that
appealed to me I also began reading material outside my textbooks
such as books in the Nuffield Science Series and others I came across
in the Calcutta British Council Library which began giving me a
broader look at the world of science But I was still clueless This was
evident in my applying for almost every conceivable program for
college (Engineering Medicine Geology Agriculture Physics and
Statistics) and being selected but not necessarily into the best schools
or programs Thus bdquosuccess‟ did not clarify my thinking any one bit
Finally I did choose to attend the Indian Statistical Institute (ISI)
outside Calcuttahellipa then beautiful oasis of calm in the politically
turbulent Calcutta of 1970‟s when being young well-read and aware
were enough to raise suspicions in the Calcutta Police (For those who
doubt the serious and mortal danger all young people in Calcutta
were under during this time read the daily newspaper reports from
the 70‟s)
For me Indian Statistical Institute (ISI) was
an escape from reality and an entry into a
synthetic artificial and manufactured world
of quantitative ideas
Our courses over 4 years in a US-style undergraduate were 50
Mathematics and Statistics and 50 an assortment of sciences and
economics (to learn the various domains in which quantitative
reasoning would be critical) where we were taught to ask bdquowhy‟ not
only bdquohow‟ something worked For the first time I found myself in an
atmosphere where understanding mattered more than knowledge
(dont worry knowledge did matter greatly) the pursuit of a job was
a side issue and we were encouraged to discover any area we
wished (or thats how I felt) I also had passionate teachers who were
the very best in the world For the first time I felt liberated learning
was fun and pursuing science as a life seemed like the only natural
thing to do It wasnt a one day transformationhellipby the time I left ISI I
knew that I could ask and answer at least some questions ISI was the
institution where the famed British polymath and geneticist J B S
Haldane came to in 1957 and became one of the architects of my
undergraduate program Although Haldane died in 1964 his ghost
was still around when I was a student at the ISI That I would do
genetics and be a scientist particularly in human genetics was
therefore a no brainer
Could you briefly take us through your scientific journey and
about your interest in genetics
My interest in genetics was established at the ISI but no less fueled by
my reading of Jim Watson‟s The Double Helix in 1970 and then as
credited by Watson and Crick Erwin Schrodinger‟s What is Life As a
student of the quantitative sciences at ISI the part of genetics that
appealed to me (simply because I could digest it) was Population
Genetics Also ISI had a Department of Human Genetics that
performed numerous studies of human genetic molecular diversity
across populations in India So my early training was in studies of
human population diversity Nevertheless Haldane‟s research (that I
was increasingly becoming aware of) was equally in family studies
that exemplified mechanisms not evident in population studies So as
a student I conducted and published research into the inheritance of
simply observable traits (bdquohand clasping‟ or the phenotype where you
classify individuals by whether they fold their left thumb over their
right or vice versahelliptry it only one way feels correct) just to learn
genetics and to attempt to combine the family and the population
methods that are so common today Fortunately by this time I had left
myself few opportunities to be interested in doing anything else but
human genetics
5
IN CONVERSATION WITH Dr Aravinda Chakravarti
Being rejected by several programs to study genetics in India
(because I was not a biology undergraduate) I chose to do graduate
work with the noted geneticist and molecular evolutionist Masatoshi
Nei at the University of Texas Houston where he had just moved I
arrived in Houston in 1974 and was immediately thrust into a small
intense center with brilliant people and expected to perform research
at a level I was surely unaccustomed to This group was the epicenter
of the then neutralist-selectionist debate in molecular evolution a
problem that was exciting but not my cup of tea I wanted to study
human genetics and finally fashioned a research project with Nei that
explored the theoretical consequences of improved genetic counseling
with linkage and association (linkage disequilibrium) markers and
graduated with a PhD in 1979 This research was not only far ahead
of its time coming before the proposal of creating a human linkage
map using RFLPs (restriction fragment length polymorphism) in 1980
but I was the only Nei student who worked outside molecular
evolution In many ways then my development in genetics became
very broad and haphazard since I often focused on areas that were
not my primary training grounds
By this time I was a geneticist but thought I needed further training in
genetic epidemiology to understand human disease better However
after an unsuccessful postdoc at Seattle I abandoned this idea to
take a non-tenured teaching position at the University of Pittsburgh
thinking that the bdquofree‟ time I would have would allow me to catch up
on the revolution in recombinant DNA technology that was underway I
am glad I did since this was one of the best
professional decisions I made by forgoing
the standard path
I taught at Pittsburgh for 5 years and subsequently obtained an NIH
Research Career Development Award to pursue a research career
That began my standard research career in human genetics
What according to you are the challenges in your field of
research
The field of human genetics is not the one I trained in since so much
has changed with the sequencing of the human genome Human
genetics has two distinct themes one descriptive as to the causes of
human variation be it molecular or phenotypic (the bdquohow‟ question)
and a second mechanistic as to how variation in molecular
mechanisms impact phenotype variation particularly disease (the
bdquowhy‟ question) The whole attraction of the human genome project to
me and others like me who spent more than a decade on building the
now available community resources (maps clones sequences variants
transcripts etc) was to move from the first set to the second set of
questions This transformation is difficult since it is not in the comfort
zone of conventional human genetics its hard and unpredictable
much more hypothesis-driven and much more experimental The
challenge in my field and in many associated medical specialties is
that it‟s far easier to do the first then the second Scientists are voting
with their feet Human geneticists are far more content in sequencing
human genomes finding associations with disease and doing facile
functional annotation than a serious investigation into why does this
gene causes type 2 diabetes and the next one congenital cataract
Or why mutations in the same gene cause a neuroendocrine tumor
when activating but congenital aganglionosis when loss-of-function
Or how come the same mutation can act as either activating or loss-
of-function
The biggest challenge in my field is to
overcome the inertia that molecular
description = etiological explanation
If you were not a scientist you would behellip
I really have no idea I presume the Bengali in me implicitly wants
or always wanted to be a writer but that would be a great leap of
faith and quite arrogant Even good scientific writing is hard very
hard indeed I have often read someone else‟s paper that I enjoyed
and thought that I could have done the same work a similar thought
has not appeared after reading someone else‟s creative work except
when it is quite bad
5 What is the best advice you have ever received
Unfortunately most advice that most people get and give is bad
More correctly its difficult to know (what‟s the test) when it is good
and when bad Each of us likely adapt a post-hoc explanation to our
stories all of which are likely revisionist Nevertheless two different
people (a brother and a family friend) at about the same time
(1979-1982) told me to abandon what I was doing (an unsuccessful
postdoc and forcing myself to complete reading a fairly racist
account of the Black Hole of Calcutta) because it was beyond my
enjoyment They both suggested that I drop it and do something else
One should not shoulder a burden that is great unless some higher
purpose is at stake One needs to learn how to apportion risk with
benefit
Your message for young students and researchers
Science is difficult but exhilarating in its rare moments of success
and it‟s usually followed by long periods of stasis It is a great but
frustrating life and there are many worse ways of making a living It
is like other types of creative endeavors where discovery is real but
rare If you wish to do it be sure you can enjoy its moods Science
today is also multidisciplinary and translational its application to
humans and other benefits can also be tangible sources of pride But
do it not for these benefits do it because the science gives you great
joy Yes joy Consider that you are one in an
unbroken intellectual chain from Johannes
Kepler and Isaac Newton If you choose
science you are special
Dr Chakravarti‟s laboratory focuses on the development and
applications of molecular genetic genomic and computational
methods for identification of human disease genes through
genetic dissectionldquo He has been a key participant and architect
of the Human Genome HapMap and 1000 Genomes project Find
out more about his research here
6
Workshop at a glance One-day workshop to equip young science
researchers with tools and strategies for effective communication of
their ideas experiments and scientific results from a science
communication perspective Help them to make science career choices
Vision Science communication plays an integral role in one‟s scientific
career Being able to effectively disseminate research findings within
the community and to consider collective opinions in prioritising
research needs is an important attribute of scientific maturity In
keeping with its mandate to empower future leaders of Indian science
the Wellcome TrustDBT India Alliance periodically conducts one-day
(SciComm101) and two-day (SciComm Hyderabad) science
communication workshops for the past four years This complements
seamlessly with Nature India‟s mandate to showcase India‟s science bdquoas
it happens‟ in laboratories and institutions across the country through
in-depth coverage and analysis of research and science policy The
proposed workshop would be part of Nature India‟s many
communication outreach activities as the one-stop media platform for
India‟s science
The Wellcome TrustDBT India Alliance and Nature India both
represent possibilities for young PhD scholars and postdoctoral
scientists to transition into academic as well as non-academic science
careers Information and advice on how to explore various career
options will form an important part of these workshops with
Naturejobs as the key organiser of the career session
Structure amp format
The workshop will be a one-day event preceding a biomedical (or
scientific) conference organised by reputed science
societiesorganisationsinstitutes and Universities in India A large
participation by PhD students postdoctoral fellows and junior
scientists will be a pre-requisite for holding this workshop Organising
this workshop as part of a conference will ensure participation from a
wide range of institutions across India The workshop will include 3
separate sessions
Session 1 Scientific Writing (moderated by WTDBT Alliance)
Topics to be covered
bull Ethics in research
bull Presentation skills
bull Manuscript writing
bull Grants writing
bull CVs and letters
Session 2 Science Communication (moderated by Nature India)
Topics to be covered
bull Science journalism
bull Popular science writing
bull Effective press releases
bull Hands-on skills on dejargonising science
Session 3 Alternate Science Career (moderated by Nature Jobs)
Topics to be covered
bull Career in the Industry
bull Career in Science PromotionIntellectual Property
bull Career in PolicyGrant organizations Journalism
Science Communication and Career Workshop Series (In partnership with Nature India amp Naturejobs )
Please contact us at workshopswellcomedbtorg to find out more about this series
INDIA ALLIANCE
SCIENCE COMMUNICATION
SciComm101 workshop
10 March 2016 MSU Baroda
Two-day SciComm workshop
21-22 March 2016 Hyderabad Applications under review
For more details visit SciComm Workshop under Quick Links on our website
Upcoming Workshops
5
ABOUT THE ART amp SCIENCE PROJECT
CALL FOR APPLICATIONS THE UNDIVIDED MIND |ART +
SCIENCE RESIDENCY AT KHOJ
Residency Dates March 2nd ndash April 2nd 2015
Application Deadline February 2nd 2015
Proposals are invited for bdquoThe Undivided Mind‟ a four-week
international residency for artists whose work explores the
intersection of art and science
At first it may seem that the pairing of Art amp Science is an atypical
choice as the two fields and methods of practice have almost
universally been represented as diametric opposites of each other
However on closer examination the similarities between artists and
scientists far outweigh their stereotypical differences Both are
dedicated to research and to asking the big question- what is true
Why does it matter How can we move society forward Moreover
both the lab and the studio are spaces that famously encourage
open-ended enquiry and emphasis on process In tune with Khoj‟s
commitment to cultivate an environment that allows for
experimentation and innovation the Art amp Science residency will be
a step towards furthering the explorations of interdisciplinary
practitioners This is the second edition of a Khoj residency focusing
on Art + Science to know more about the first edition please
click bdquohere‟
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
The following India Alliance Fellows will be participating in the
project
(NOTE If an applicant wishes to connect with any of the following
researchers in advance of submitting their proposal please contact
the Khoj team at bdquoapplicationskhojworkshoporg‟ for an
introduction please do the same if you are a scientist and would like
take part in this project )
Dr Venkatasubramanian Ganesan National Institute of Mental
Health and Neurosciences (NIMHANS) Bangalore
Dr Pallab K Maulik The George Institute for Global Health New
Delhi
Dr Anurag Agarwal CSIR-Institute of Genomics amp Integrative
Biology (IGIB) New Delhi
Dr Tavpritesh Sethi All India Institute of Medical Sciences (AIIMS)
New Delhi
Dr Lolitika Mandal Indian Institute of Science Education and
Research (IISER) Mohali
Dr Urvakhsh MehtaNIMHANS Bangalore
Dr Sheetal Gandotra IGIB New Delhi
Visit Khoj website to find out more about the residency and the application process
Apply by
2 February 2016
India Alliance is pleased to announce its support for Art amp Science Project at Khoj International Artists Association New Delhi details of
which can be found below and on the Khoj website It promises to be a great platform for interdisciplinary dialogue and exchange
between scientists and artists and we encourage anyone interested to apply (artists) and get involved (scientists)
THEME
The theme of the 2016 edition of The Undivided Mind is bdquoHealth‟
Within this broader framework three curatorial frameworks or
modes for exploration are suggested Terrestrial Health refers to
that which is on or related to the earth This sub ndash theme suggests an
investigation into the physical health and structure of the body (both
human and animal) the environment the community and the
interrelations between these spheres Mental Health refers to that
which is of or relating to the mind This sub ndash theme focuses on a
psychological investigation of what constitutes Health of the mind
and raises questions about the bdquosocially‟ defined state of well-being
where issues‟ surrounding the legal rights and entitlement of
personhood for those living with a mental disorder is open for
debate Finally Extraterrestrial Health may refer to any object
being or idea beyond the planet Earth This sub ndash theme opens up a
space where the relationship between Earth and other planetary
bodies can be studied What does it mean for human existence when
sending human life forms to Mars is projected to take place by
2020 What are the long term effects and solution to space debris
if life projects out beyond Earth This sub ndash theme also invites
applicants to consider the abstract and metaphorical imaginings of
health in contemporary and future societies
6
Nobel Laureate Dr Harold Varmus recognized for his research on
retroviruses and the genetic basis of cancer gave a lecture on ldquoRecent
Developments in Cancer Researchrdquo at National Institute of Immunology
(NII) New Delhi an event co-organised by NII Wellcome TrustDBT
India Alliance and Department of Biotechnology Government of
India His lecture largely gave an overview of the recent
developments challenges and the future directions in the field of
cancer research which included the current research of his group in
this area
Dr Varmus who had spent time in Bareilly as a young medical
student described cancer as a complex disease that requires
innovative research and treatment strategies At the outset Dr Varmus
introduced the key questions that drive the cancer research field- Is
cancer one disease or many diseases What makes the cancer cell
grow so stably in such an inappropriate manner How does a normal
cell become a cancer cell Providing answers to these questions
formed the backdrop of Dr Varmus‟s lecture which drew from his
research work till date and other advances in the field
Dr Varmus entered the field of cancer research in 1970s as a
postdoctoral scientist in the laboratory of Dr John J Michael Bishop at
University of California San Francisco USA the same year National
Cancer Act was signed in the country Dr Bishop and Dr Varmus
together received the Nobel Prize in Medicine and Physiology in
1989 ldquofor their discovery of the cellular origins of retroviral
oncogenesrdquo During his lecture Dr Varmus confessed standing on the
shoulders of giants of retroviral and cancer research such as Dr
Peyton Rous Dr Harry Rubin and Dr Howard Temin to ask the question
of how retroviruses transformed cells and cause tumours This question
led him to look for genes that make a normal cell behave like a
cancer cell which initially involved studying cancer-causing RNA
virusesretroviruses in animals The retrovirus that played a lead role
in Dr Varmus and his colleague‟s work was the Rous Sarcoma Virus
(RSV) discovered by Dr Peyton Rous in 1911 which he showed caused
a type of cancer in chickens Dr Varmus and colleagues set out to
prove the hypothesis that retroviruses enter host cells and capture
normal genes in that cell by inserting their DNA converting them into
cancer-causing genes or oncogenes Dr Varmus and his group
employed various cellular chemical as well as genetic tools to
establish that retroviruses can indeed act as mutagens by inserting
their DNA in host cells and turning them into cancer cells After this his
group went on to identify the cancer-causing genes present in the
virus and subsequently discovered many new oncogenes v-Src (a
gene of RSV) being the first one Following these discoveries and
subsequently many others led to the belief that the genetic basis of
cancer is highly heterogeneous Dr Varmus told us that in order to
catalogue these complexities the Cancer Genome Atlas was
established in 2005 which till today serves as a collection of the
genetic mutations responsible for different cancers
Apart from the complexity and vastness of the cancer genome
other challenges in the field according to Dr Varmus are genetic
heterogeneity and evolution of tumours due to various environmental
factors such as exposure to UV pollution tobacco use and other
environmental carcinogens that are on the rise He used the example
of renal tumor evolution which illustrates Darwin‟s theory of ldquoevolution
of speciesrdquo to show that this rapidly changing genetic repertoire can
have significant impact on diagnosis therapeutic interventions and
prognosis Another issue of concern highlighted by Dr Varmus was the
absence of suitable drugs against many common targets for cancer
such as cancer-causing RAS genes and many transcription factors
which have been shown to contribute towards cancer formation Dr
Varmus opined that lack of understanding of the underlying
complexity of resistance to cancer therapies is another roadblock in
cancer treatment He was also strongly of the opinion that there are
not enough public health interventions to prevent cancer- this he felt
needs to go hand in hand with finding cure for cancer
Dr Varmus also offered solutions to these problems He suggested
that research needs to ldquolook beyond genes and focus on patterns and
pathwaysrdquo and physiological changes taking place in cancer cells He
shared his group‟s current interest in studying ldquooncogene addictionrdquo
which is based on the premise that some oncogenes not only give rise
to cancer but also maintain the cancerous state of the cells
Interpreting the downstream effects of these cancer genes on the
pathways could be employed as a strategy to attack multiple targets
by drugs in different cancers Even though he hailed the successes of
many commonly used and extremely efficacious anti-cancer drugs
such as Gleevec Gefitinib Erlotinib but in light of growing
complexity of the disease proposed the need for adopting more
innovative drug discovery and treatment approaches Continuing on
the topic of therapeutics Dr Varmus mentioned the recent advances in
immunotherapeutic approaches to treat cancer which would require
us to understand why the otherwise combative immune system does
not kill cancer cells He suggested that gaining understanding of these
immune check points and accordingly targeting them by antibody
inhibitors could serve as one more effective treatment strategy-
another project his research group has undertaken In addition to
these therapeutic approaches Dr Varmus very strongly asserted that
ldquonot everything we talk about cancer should be about cancer therapy
but also about preventionrdquo and that this disease ought to be on the
global health agenda
Dr Varmus very eloquently concluded his talk by stating that
ldquoconfronting cancer needs a balance between grasping its complexity
and seeking simple solutionsrdquo As expected he received many
questions from the audience after his lecture on the genetics and
biology of various cancers potential use of vaccines in cancer
treatment crosstalk of cancer with other diseases and many others to
which he responded with prudence and an underlying sense of
optimism
Prior to his lecture Dr Varmus over an hour meeting with 10 young
cancer researchers discussed their work This group included the
following Wellcome TrustDBT India Alliance Fellows - Dr Reety Arora
(ECF InStem Bangalore) Dr Anjali Bajpai (ECF IIT Kanpur) Dr
Bushra Ateeq (Int Fellow IIT Kanpur) Dr Kundan Sengupta (Int Fellow
IISER Pune) and Dr Sandeep Singh (Int Fellow NIBMG Kalyani) Dr
Varmus also sought information on the India Alliance Fellowships and
was impressed by its funding model and reach
LECTURE REPORT
Recent Developments in Cancer Research By Dr Harold Varmus Nobel Prize in Medicine and Physiology Weill Cornell Medical College USA
at
National Institute of Immunology New Delhi
16 November 2015
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
7
ASK THE SCIENTIST about
The Human Brain
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
This section will bring to you answers to those burning scientific questions that you always wanted to ask the guys in the white
coat For this issue we asked some of our Fellows to shed light on the various operations of the brain
How can we measure attention
DR SUPRATIM RAY Indian Institute of Science Bangalore
Intermediate Fellow
Attention can be of different types such as sustained (vigilance)
selective (focusing at one stimulus in the presence of distractors) or
alternating (involves switching) which can be measured using a
variety of cognitive tests (such as test of everyday attention (TEA) or
Posner cuing task) For example in a classical Posner task a subject
is repeatedly shown two stimuli and cued to attend to one of them
and instructed to respond to a change in the stimulus (say by
pressing a button) The cue could be valid (change occurs at the cued
stimulus say for 80 of the trials) invalid (change occurs at the
uncued stimulus) or neutral (ambiguous) Selection attention can be
measured by comparing the accuracy and the time taken to press
the button after stimulus change (called reaction time) for different
cue types
Different components of attention such as orienting towards a
location detecting a target or maintaining vigilance are carried out
by distinct brain areas in the prefrontal and parietal lobes and some
sub-cortical structures (such as superior colliculus) Overall
performance depends not only on how these areas perform but also
how they communicate with each other and on the levels of
neuromodulators such as norepinephrine
How can we sense smell Is it possible to live without this
sense of smell
DR NIXON ABRAHAM Indian Institutes of Science Education amp
Research (IISER) Pune
Intermediate Fellow
Once Dr Lewis Thomas (1913-1993) the poet and a philosopher of
medicine who also served as the dean of the medical schools at the
New York University and Yale was asked to select seven wonders of
the modern world Olfaction (olfactory receptor cell) was fifth in his
list How does the modern fifth wonder that brings us the smell of our
surroundings ndash the good and bad work
The process of making sense of smell start by binding the odor
molecules to the olfactory receptors located in the olfactory sensory
neurons (OSNs) in the nose This binding triggers a series of signal
amplification steps which lead to electrical spikes (so called action
potentials) in OSNs This olfactory information whose intensity is
encoded by varying the number of action potentials is then passed
onto the projection neurons named mitral and tufted cells in the
olfactory bulb These projection neurons whose excitatory actions
are controlled by various inhibitory neurons carry the olfactory
information to the higher centers in the brain so that we perceive the
smell of spicy tasty food and putrid garbage ndash the good and bad
from the environment
Continued
9
Brain waves
measured by EEG
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
What is really happening inside the brain of a Schizophrenia
patient Does it look any different from a normal brain
DR VENKATASUBRAMANIAN GANESAN NIMHANS Bengaluru
Intermediate Fellow
The brain of a schizophrenia patient is reduced in overall volume
with increase in the size of the ventricles (parts of the brain that
contain cerebrospinal fluid) however certain parts like hippocampus
superior temporal gyrus and prefrontal cortex are more affected
than others Using certain advanced brain imaging research studies
(for example high resolution structural MRI functional MRI Magnetic
Resonance Spectroscopy Positron Emission Tomography and Diffusion
Tensor Imaging and similar others) subtle brain abnormalities in
structure function neurochemical profile as well as brain connectivity
have been demonstrated in several brain regions in schizophrenia
patients It is important to note that these findings are obtained
from advanced research studies that have compared brains of a
Why are the mirror neurons called the Minds mirror What do
they reflect
DR URVAKHSH MEHTA National Institute of Mental Health amp
Neurosciences (NIMHANS) Bengaluru
Early Career Fellow
Mirror neurons are specialized nerve cells that discharge when
we perform actions as well as when we observe others perform the
same action Rizzolatti and colleagues accidentally discovered them
in monkeys These neurons also get vicariously activated when we
perceive emotional states of others This unique bdquoexperience sharing‟
property of mirror neurons perhaps enables us to decipher goals
intentions and emotions of others
In several of our daily social interactions we need to take
perspectives of others decipher deception share feelings and
empathize with others The mirror neuron system is an important
brain network that helps us peek into the minds of others and try to
understand people They translate sensory information (eg
observation of an action) into a motor template which is similar to
the format an observer himself uses to perform that very action This
motor template can help us interpret the goals and feelings
underlying observed actions The definitive demonstration of mirror
neurons in humans was as recent as 2010 There is also growing
evidence of a dysfunctional mirror neuron system in psychiatric
disorders like autism and schizophrenia It is a long and exciting
future ahead to decipher spatiotemporal regulatory and genetic
underpinnings of this unique neuronal network ndash this will possibly
help understand and treat social brain disorders better
Schizophrenia
What happens if we loose our sense of smell Loss of olfaction can
be caused by many reasons ranging from viral infections to
neurodegenerative disorders As our emotions and memories are
strongly related to olfaction the loss of this sense can lead to
depressed state and even affect bonding with family members Just
imagine sipping from your morning coffee without sensing it‟s aroma
- our taste could be badly affected by losing sense of smell The
ongoing research at the nasal stem cell level might provide clinical
solutions for the disorders of the olfactory sensory neurons to regain
this wonderful sense
group of schizophrenia patients with that of healthy subjects thus
these are group averaged findings that are currently not applicable
for diagnosing schizophrenia in an individual patient in a regular
clinical setting In ldquoa specific patientrdquo one may not be able to find
any striking abnormality in the physical appearance of the brain (ie
a routine CT or MRI brain scan may not be able to identify any
obvious aberration) Several ongoing research studies are in pursuit
to identify clinically useful biomarker to diagnose schizophrenia
Find out more about Dr Ganesan‟s research on schizophrenia here
Do you have a burning scientific
question
Send them to
publicengagementwellcomedbtorg
Mirror neuron activity in the brain both when the monkey grasps an object
and when it observes the experimenter grasping the object Mirror neurons
were first discovered by Rizzolatti and colleagues when they were studying
motor actions in macque monkeys
10
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
We at the India Alliance wish you a very happy and prosperous 2016 There were many highlights and events last year which we
tried to bring to you through these newsletters our brand new website social media and emails We hope to be able to do the same this
year
The first issue of 2016 has announcements of our Fellowship schemes updates on funded research and other IA activities It also
features interesting article interviews and event announcements
Apart from our Fellows who are making waves in their fields we are also very fortunate to have distinguished scientists on our
fellowship selection committee We wish to congratulate our committee member Dr Amit Sharma (ICGEB New Delhi) for being awarded
the Infosys Award 2015 for ldquofor his pioneering contributions to deciphering the molecular structure at atomic level of key proteins
involved in the biology of pathogenesis of the malarial parasiterdquo In a move to encourage and support women scientists Department of
Biotechnology Government of India along with Biotechnology and Biological Research Council (BBRC) Economic and Social Research
Council (ESRC) and the Royal Society announced a program for women in STEM at JNU New Delhi earlier this month Details of the
program will be announced Feb end 2016
Last year ended with 25 Fellowships being awarded at the November 2015 round of interviews for Clinical and Public Health
Research Margadarshi and Intermediate Research (basic) Fellowship schemes bringing the total number of awards to 202 at 64
different institutions We are happy to welcome the new awardees to the India Alliance Family We are now accepting preliminary
applications for the Clinical and Public Health Research Fellowships 2016 Please check our website for the call for applications for our
Research Training Fellowship Senior and Intermediate Fellowship (Basic scheme) and Margadrashi Fellowship early next month
On the Public Engagement front we are very pleased to announce our support for the Art amp Science Project at Khoj International
Artists Association details of which can be found in this newsletter and on the Khoj website It promises to be a great platform for
interdisciplinary dialogue and exchange between scientists and artists and we encourage anyone interested to apply (artists) or get
involved (scientists) In an effort to sensitize public about pressing health issues India Alliance along with Public Health Foundation of
India will be organizing a Health discussion series (Voices for Health) where the public thought leaders and experts will be engaged in
a series of panel discussions in multiple Indian cities across the year More information on this series will be posted on our website in a
couple of weeks This issue also includes reports on a Public Lecture given by renowned cancer researcher and Noble Laureate Dr
Harold Varmus in December at NII New Delhi and the first one-day Foldscope workshop organized by the Department of
Biotechnology
On the Science Communication front we will be holding our biannual two-day SciComm workshop in Hyderabad on 21-22 March
2016 Applications for this workshop are now closed and selected participants will be informed shortly Our SciComm team will be
visiting Maharaja Sayajirao University of Baroda to hold the one-day SciComm101 workshop in March In an attempt to strengthen and
diversify its Science Communication activities India Alliance has tied up with Nature India and Nature Jobs to launch a new workshop
format which would focus on science writing communication and alternate science careers Please write to us if you would like to know
more about this workshop
In this issue we feature interviews of our Clinical and Public Health Research Fellowship Selection Committee member and eminent
geneticist Dr Aravinda Chakravarti Senior Fellow Dr Roop Malik who is working on motor proteins at TIFR Mumbai and Dr Sujatha
Reddy our Grants Adviser Heartfelt gratitude to them for sharing interesting and useful insights on their work and life In the piece
titled ldquoA Sponge Against a Swordrdquo Intermediate Fellow Dr Partho Sarothi Ray writes about the molecular underpinnings of cancer and
inflammation and the crosstalk between the two in the backdrop of his recently published research on RNA-binding proteins bdquoAsk the
Scientist‟ section is an attempt to make science more accessible and understandable and includes simple questions from non-scientists who
are keen to know more about scientific principles underlying life processes the human body etc In this issue questions on brain and its
functions are answered by our Fellows- Dr Venkatasubramanian Ganesan Dr Urvakhsh Mehta Dr Supratim Ray and Dr Nixon Abraham
A big thank you to all of them
Last but not the least thank you to our Early Career Fellow Dr Srinivas Marmamula for sharing the image for the cover which shows a
vision technician assessing vision in a woman in a remote rural area as part of public research project in Telangana initiated by L V
Prasad Eye Institute in India
Here‟s to a year of new possibilities explorations and discoveries
Best wishes
Sarah Iqbal PhD
Public Engagement Officer
EDITORIAL
1
CONTENTS
3 INDIA ALLIANCE CALL FOR APPLICATIONS
Clinical and Public Health Research Fellowships 2016
4 INDIA ALLIANCE RECOMMENDED FELLOWSHIP AWARDEES
Clinical and Public Health Research Fellowship Intermediate (Basic) Fellowship
5 IN CONVERSATION WITH
Dr Aravinda Chakravarti Director Center for Complex Disease Genomics amp Professor of Medicine
at Johns Hopkins University School of Medicine
7 SCIENCE COMMUNICATION
New Nature India-India Alliance workshop SciComm Hyderabad SciComm101 workshop
announcements
8 PUBLIC ENGAGEMENT CORNER
Art amp Science project Harold Varmus Lecture report Ask the Scientist
12 INDIA ALLIANCE FELLOW IN SPOTLIGHT
Dr Roop Malik Senior Fellow TIFR Mumbai
13 FEATURE ARTICLE
ldquoA Sponge Against a Sword rdquo
by Dr Partho Sarothi Roy Intermediate Fellow IISER Kolkata
15 INDIA ALLIANCE STAFF CORNER
Dr Sujatha Reddy Grants Adviser India Alliance
16 EXTERNAL EVENTS
First Foldscope Workshop in India- report Medicine Corner Exhibition Trick or Treat workshop
2
Eligibility
Eligibility limit covers the entire range of Clinical and Public
Health Research Fellowship schemes
bull No age or Nationality restrictions
bull The candidates need not be resident in India while
applying but should be willing to establish an
independent research career in India
bull Clinicians and Public health researchers do not require a
PhD to apply
bull This competition is open for clinicians and public health
researchers with up to 15 years of post-
MDMSMPHPhD or equivalent clinical public health
research experience
bull The Applicants are advised to choose the most
appropriate scheme suitable for them based on their
qualification research experience career trajectory and
track record Please refer to the guidance notes
provisions and mandate of the scheme for assessing your
eligibility on the website The Office reserves the right to
advice on the suitability of the scheme accordingly
Early Career Fellowship This scheme provides a unique
opportunity for those who have shown promise to pursue
research and wish to further their efforts to build a research
career under the supervision of a Fellowship
supervisor Guidance note Suitable for applicants in the final
year PhDMDMSMPH or have up to 4 years of relevant
experience
Intermediate Fellowship For those who have been
successful in building a track record of pursuing a cutting
edge research and wish to establish their own independent
clinicalpublic health research program in India Guidance
note Suitable for applicants with 4-7 years of relevant
experience
INDIA ALLIANCE FELLOWSHIP ANNOUNCEMENT
CALL FOR APPLICATIONS
Application forms are available on the India Alliance online
application System (IASys) at
httpsfellowshipswellcomedbtorgLoginaspx
Please visit our website for further information on the application process Please write to us with
queries to infowellcomedbtorg
3
CLINICAL AND PUBLIC HEALTH RESEARCH FELLOWSHIPS 2016
Preliminary Application Deadline 1 March 2016
India Alliance invites applications for three Fellowship schemes
Early Career Fellowships Intermediate Fellowships and Senior Fellowships
Senior Fellowship For those who have demonstrated their
potential to lead an independent research program and
want to expand it further to undertake pioneering research
Guidance note Suitable for applicants with 7-15 years of
relevant experience
Remit Full spectrum of biomedical science involving clinical
and public health research
Provisions
bull These Fellowships would encourage interested clinicians
to pursue their research goals in combination with their
clinical duties
bull Competitive personal support
bull Generous research support with flexibility to
accommodate requirements of clinical and public health
research
bull Flexibility to request additional support staff
bull Support training cost and research sabbatical
bull Funds for International training and travel
bull Opportunity to pursue a PhD on the India Alliance
funded research
Essentials on the application
bull A research proposal that seeks to answer an original
biomedical research question
bull A not-for-profit Host Institution in India that will
administer the Fellowship for the full duration of the
award A salaried position or commitment to a salaried
position at the Host Institution is not required
bull A Sponsor at the Host Institution who can guarantee
space and resources for the duration of the award
bull In case of an Early Career Fellowship a Fellowship
Supervisor who can guarantee access to laboratory
space and resources required for the project as well as
provide relevant scientific guidance for the tenure of the
Fellowship
CLINICAL AND PUBLIC HEALTH RESEARCH FELLOWSHIPS
Early Career Fellowships
Dr Jayanth Kumar Palanichamy All India Institute of Medical Sciences New Delhi
Dr Aparna Mukherjee All India Institute of Medical Sciences New Delhi
Dr Deepak Kamath St Johns National Academy Of Health Sciences Bangalore
Intermediate Fellowships
Dr Aparna Rao L V Prasad Eye Institute Bhubaneswar
Dr Abi Vanak Ashoka Trust for Research in Ecology and the Environment Bangalore
Dr Shivarama VaramballyNational Institute of Mental Health and Neurosciences Bangalore
Dr Rashmi Rodrigues St Johns National Academy Of Health Sciences Bangalore
Dr Mahesh Kate Christian Medical College Ludhiana
Research Training Fellowships
Ms Urvita Bhatia Sangath Porvorim
Dr Deepak Gautam All India Institute of Medical Sciences New Delhi
Dr Sumsum P Sunny Mazumdar Shaw Medical Center Bangalore
Dr Dhruva Ithal National Institute of Mental Health and Neurosciences Bangalore
Dr Rakshathi B National Institute of Mental Health and Neurosciences Bangalore
ANNOUNCEMENT
RECENTLY RECOMMENDED AWARDEES
BASIC RESEARCH FELLOWSHIPS
Intermediate Fellowships
Dr Sridharan Devarajan Indian Institute of Science Bangalore
Dr Nitin Gupta Indian Institute Of Technology Kanpur
Dr Sachin Kotak Indian Institute of Science Bangalore
Dr Aravind Penmatsa Indian Institute of Science Bangalore
Dr Siddhesh Shashikant Kamat Indian Institute of Science Education and Research Pune
Dr Mohan Joshi Centre for DNA Fingerprinting and Diagnostics Hyderabad
Dr Satish Khurana Indian Institute of Science Education and Research Thiruvananthapuram
Dr Pinky Kain Indian Institute of Technology Roorkee
Dr Santosh Chauhan Institute Of Life Sciences Bhubaneswar
India Alliance announced Fellowship Awardees of the Clinical and Public Health Research Fellowship
scheme and Intermediate Fellowship under the Basic Biomedical Research competition in December 2015
The interviews for these Fellowship schemes were held in November 2015
indicates institution that before this award did not have any India Alliance Fellow
4
MARGADARSHI FELLOWSHIP
Prof Satyajit Mayor National Centre for Biological Science Bangalore
IN CONVERSATION WITH
Dr Aravinda Chakravarti
Dr Aravinda Chakravarti is a Professor of Medicine Pediatrics Molecular Biology amp Genetics and Biostatistics and Director Center
for Complex Disease Genomics at the Johns Hopkins University School of Medicine and the Bloomberg School of Public Health He
also has a long association with the India Alliance as a member of its Clinical and Public Health Research Fellowship committee
What motivated you to become a scientist
I cannot say that it was any one person or one event or any one
point of time that led me to consider doing science Nor did I know
what being a scientist would entail or how one prepared to become
one I was not interested in science nor good at it or anything else for
that matter before the 9th grade But subsequently it was the
concreteness and logic of mathematics and the sciences that
appealed to me I also began reading material outside my textbooks
such as books in the Nuffield Science Series and others I came across
in the Calcutta British Council Library which began giving me a
broader look at the world of science But I was still clueless This was
evident in my applying for almost every conceivable program for
college (Engineering Medicine Geology Agriculture Physics and
Statistics) and being selected but not necessarily into the best schools
or programs Thus bdquosuccess‟ did not clarify my thinking any one bit
Finally I did choose to attend the Indian Statistical Institute (ISI)
outside Calcuttahellipa then beautiful oasis of calm in the politically
turbulent Calcutta of 1970‟s when being young well-read and aware
were enough to raise suspicions in the Calcutta Police (For those who
doubt the serious and mortal danger all young people in Calcutta
were under during this time read the daily newspaper reports from
the 70‟s)
For me Indian Statistical Institute (ISI) was
an escape from reality and an entry into a
synthetic artificial and manufactured world
of quantitative ideas
Our courses over 4 years in a US-style undergraduate were 50
Mathematics and Statistics and 50 an assortment of sciences and
economics (to learn the various domains in which quantitative
reasoning would be critical) where we were taught to ask bdquowhy‟ not
only bdquohow‟ something worked For the first time I found myself in an
atmosphere where understanding mattered more than knowledge
(dont worry knowledge did matter greatly) the pursuit of a job was
a side issue and we were encouraged to discover any area we
wished (or thats how I felt) I also had passionate teachers who were
the very best in the world For the first time I felt liberated learning
was fun and pursuing science as a life seemed like the only natural
thing to do It wasnt a one day transformationhellipby the time I left ISI I
knew that I could ask and answer at least some questions ISI was the
institution where the famed British polymath and geneticist J B S
Haldane came to in 1957 and became one of the architects of my
undergraduate program Although Haldane died in 1964 his ghost
was still around when I was a student at the ISI That I would do
genetics and be a scientist particularly in human genetics was
therefore a no brainer
Could you briefly take us through your scientific journey and
about your interest in genetics
My interest in genetics was established at the ISI but no less fueled by
my reading of Jim Watson‟s The Double Helix in 1970 and then as
credited by Watson and Crick Erwin Schrodinger‟s What is Life As a
student of the quantitative sciences at ISI the part of genetics that
appealed to me (simply because I could digest it) was Population
Genetics Also ISI had a Department of Human Genetics that
performed numerous studies of human genetic molecular diversity
across populations in India So my early training was in studies of
human population diversity Nevertheless Haldane‟s research (that I
was increasingly becoming aware of) was equally in family studies
that exemplified mechanisms not evident in population studies So as
a student I conducted and published research into the inheritance of
simply observable traits (bdquohand clasping‟ or the phenotype where you
classify individuals by whether they fold their left thumb over their
right or vice versahelliptry it only one way feels correct) just to learn
genetics and to attempt to combine the family and the population
methods that are so common today Fortunately by this time I had left
myself few opportunities to be interested in doing anything else but
human genetics
5
IN CONVERSATION WITH Dr Aravinda Chakravarti
Being rejected by several programs to study genetics in India
(because I was not a biology undergraduate) I chose to do graduate
work with the noted geneticist and molecular evolutionist Masatoshi
Nei at the University of Texas Houston where he had just moved I
arrived in Houston in 1974 and was immediately thrust into a small
intense center with brilliant people and expected to perform research
at a level I was surely unaccustomed to This group was the epicenter
of the then neutralist-selectionist debate in molecular evolution a
problem that was exciting but not my cup of tea I wanted to study
human genetics and finally fashioned a research project with Nei that
explored the theoretical consequences of improved genetic counseling
with linkage and association (linkage disequilibrium) markers and
graduated with a PhD in 1979 This research was not only far ahead
of its time coming before the proposal of creating a human linkage
map using RFLPs (restriction fragment length polymorphism) in 1980
but I was the only Nei student who worked outside molecular
evolution In many ways then my development in genetics became
very broad and haphazard since I often focused on areas that were
not my primary training grounds
By this time I was a geneticist but thought I needed further training in
genetic epidemiology to understand human disease better However
after an unsuccessful postdoc at Seattle I abandoned this idea to
take a non-tenured teaching position at the University of Pittsburgh
thinking that the bdquofree‟ time I would have would allow me to catch up
on the revolution in recombinant DNA technology that was underway I
am glad I did since this was one of the best
professional decisions I made by forgoing
the standard path
I taught at Pittsburgh for 5 years and subsequently obtained an NIH
Research Career Development Award to pursue a research career
That began my standard research career in human genetics
What according to you are the challenges in your field of
research
The field of human genetics is not the one I trained in since so much
has changed with the sequencing of the human genome Human
genetics has two distinct themes one descriptive as to the causes of
human variation be it molecular or phenotypic (the bdquohow‟ question)
and a second mechanistic as to how variation in molecular
mechanisms impact phenotype variation particularly disease (the
bdquowhy‟ question) The whole attraction of the human genome project to
me and others like me who spent more than a decade on building the
now available community resources (maps clones sequences variants
transcripts etc) was to move from the first set to the second set of
questions This transformation is difficult since it is not in the comfort
zone of conventional human genetics its hard and unpredictable
much more hypothesis-driven and much more experimental The
challenge in my field and in many associated medical specialties is
that it‟s far easier to do the first then the second Scientists are voting
with their feet Human geneticists are far more content in sequencing
human genomes finding associations with disease and doing facile
functional annotation than a serious investigation into why does this
gene causes type 2 diabetes and the next one congenital cataract
Or why mutations in the same gene cause a neuroendocrine tumor
when activating but congenital aganglionosis when loss-of-function
Or how come the same mutation can act as either activating or loss-
of-function
The biggest challenge in my field is to
overcome the inertia that molecular
description = etiological explanation
If you were not a scientist you would behellip
I really have no idea I presume the Bengali in me implicitly wants
or always wanted to be a writer but that would be a great leap of
faith and quite arrogant Even good scientific writing is hard very
hard indeed I have often read someone else‟s paper that I enjoyed
and thought that I could have done the same work a similar thought
has not appeared after reading someone else‟s creative work except
when it is quite bad
5 What is the best advice you have ever received
Unfortunately most advice that most people get and give is bad
More correctly its difficult to know (what‟s the test) when it is good
and when bad Each of us likely adapt a post-hoc explanation to our
stories all of which are likely revisionist Nevertheless two different
people (a brother and a family friend) at about the same time
(1979-1982) told me to abandon what I was doing (an unsuccessful
postdoc and forcing myself to complete reading a fairly racist
account of the Black Hole of Calcutta) because it was beyond my
enjoyment They both suggested that I drop it and do something else
One should not shoulder a burden that is great unless some higher
purpose is at stake One needs to learn how to apportion risk with
benefit
Your message for young students and researchers
Science is difficult but exhilarating in its rare moments of success
and it‟s usually followed by long periods of stasis It is a great but
frustrating life and there are many worse ways of making a living It
is like other types of creative endeavors where discovery is real but
rare If you wish to do it be sure you can enjoy its moods Science
today is also multidisciplinary and translational its application to
humans and other benefits can also be tangible sources of pride But
do it not for these benefits do it because the science gives you great
joy Yes joy Consider that you are one in an
unbroken intellectual chain from Johannes
Kepler and Isaac Newton If you choose
science you are special
Dr Chakravarti‟s laboratory focuses on the development and
applications of molecular genetic genomic and computational
methods for identification of human disease genes through
genetic dissectionldquo He has been a key participant and architect
of the Human Genome HapMap and 1000 Genomes project Find
out more about his research here
6
Workshop at a glance One-day workshop to equip young science
researchers with tools and strategies for effective communication of
their ideas experiments and scientific results from a science
communication perspective Help them to make science career choices
Vision Science communication plays an integral role in one‟s scientific
career Being able to effectively disseminate research findings within
the community and to consider collective opinions in prioritising
research needs is an important attribute of scientific maturity In
keeping with its mandate to empower future leaders of Indian science
the Wellcome TrustDBT India Alliance periodically conducts one-day
(SciComm101) and two-day (SciComm Hyderabad) science
communication workshops for the past four years This complements
seamlessly with Nature India‟s mandate to showcase India‟s science bdquoas
it happens‟ in laboratories and institutions across the country through
in-depth coverage and analysis of research and science policy The
proposed workshop would be part of Nature India‟s many
communication outreach activities as the one-stop media platform for
India‟s science
The Wellcome TrustDBT India Alliance and Nature India both
represent possibilities for young PhD scholars and postdoctoral
scientists to transition into academic as well as non-academic science
careers Information and advice on how to explore various career
options will form an important part of these workshops with
Naturejobs as the key organiser of the career session
Structure amp format
The workshop will be a one-day event preceding a biomedical (or
scientific) conference organised by reputed science
societiesorganisationsinstitutes and Universities in India A large
participation by PhD students postdoctoral fellows and junior
scientists will be a pre-requisite for holding this workshop Organising
this workshop as part of a conference will ensure participation from a
wide range of institutions across India The workshop will include 3
separate sessions
Session 1 Scientific Writing (moderated by WTDBT Alliance)
Topics to be covered
bull Ethics in research
bull Presentation skills
bull Manuscript writing
bull Grants writing
bull CVs and letters
Session 2 Science Communication (moderated by Nature India)
Topics to be covered
bull Science journalism
bull Popular science writing
bull Effective press releases
bull Hands-on skills on dejargonising science
Session 3 Alternate Science Career (moderated by Nature Jobs)
Topics to be covered
bull Career in the Industry
bull Career in Science PromotionIntellectual Property
bull Career in PolicyGrant organizations Journalism
Science Communication and Career Workshop Series (In partnership with Nature India amp Naturejobs )
Please contact us at workshopswellcomedbtorg to find out more about this series
INDIA ALLIANCE
SCIENCE COMMUNICATION
SciComm101 workshop
10 March 2016 MSU Baroda
Two-day SciComm workshop
21-22 March 2016 Hyderabad Applications under review
For more details visit SciComm Workshop under Quick Links on our website
Upcoming Workshops
5
ABOUT THE ART amp SCIENCE PROJECT
CALL FOR APPLICATIONS THE UNDIVIDED MIND |ART +
SCIENCE RESIDENCY AT KHOJ
Residency Dates March 2nd ndash April 2nd 2015
Application Deadline February 2nd 2015
Proposals are invited for bdquoThe Undivided Mind‟ a four-week
international residency for artists whose work explores the
intersection of art and science
At first it may seem that the pairing of Art amp Science is an atypical
choice as the two fields and methods of practice have almost
universally been represented as diametric opposites of each other
However on closer examination the similarities between artists and
scientists far outweigh their stereotypical differences Both are
dedicated to research and to asking the big question- what is true
Why does it matter How can we move society forward Moreover
both the lab and the studio are spaces that famously encourage
open-ended enquiry and emphasis on process In tune with Khoj‟s
commitment to cultivate an environment that allows for
experimentation and innovation the Art amp Science residency will be
a step towards furthering the explorations of interdisciplinary
practitioners This is the second edition of a Khoj residency focusing
on Art + Science to know more about the first edition please
click bdquohere‟
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
The following India Alliance Fellows will be participating in the
project
(NOTE If an applicant wishes to connect with any of the following
researchers in advance of submitting their proposal please contact
the Khoj team at bdquoapplicationskhojworkshoporg‟ for an
introduction please do the same if you are a scientist and would like
take part in this project )
Dr Venkatasubramanian Ganesan National Institute of Mental
Health and Neurosciences (NIMHANS) Bangalore
Dr Pallab K Maulik The George Institute for Global Health New
Delhi
Dr Anurag Agarwal CSIR-Institute of Genomics amp Integrative
Biology (IGIB) New Delhi
Dr Tavpritesh Sethi All India Institute of Medical Sciences (AIIMS)
New Delhi
Dr Lolitika Mandal Indian Institute of Science Education and
Research (IISER) Mohali
Dr Urvakhsh MehtaNIMHANS Bangalore
Dr Sheetal Gandotra IGIB New Delhi
Visit Khoj website to find out more about the residency and the application process
Apply by
2 February 2016
India Alliance is pleased to announce its support for Art amp Science Project at Khoj International Artists Association New Delhi details of
which can be found below and on the Khoj website It promises to be a great platform for interdisciplinary dialogue and exchange
between scientists and artists and we encourage anyone interested to apply (artists) and get involved (scientists)
THEME
The theme of the 2016 edition of The Undivided Mind is bdquoHealth‟
Within this broader framework three curatorial frameworks or
modes for exploration are suggested Terrestrial Health refers to
that which is on or related to the earth This sub ndash theme suggests an
investigation into the physical health and structure of the body (both
human and animal) the environment the community and the
interrelations between these spheres Mental Health refers to that
which is of or relating to the mind This sub ndash theme focuses on a
psychological investigation of what constitutes Health of the mind
and raises questions about the bdquosocially‟ defined state of well-being
where issues‟ surrounding the legal rights and entitlement of
personhood for those living with a mental disorder is open for
debate Finally Extraterrestrial Health may refer to any object
being or idea beyond the planet Earth This sub ndash theme opens up a
space where the relationship between Earth and other planetary
bodies can be studied What does it mean for human existence when
sending human life forms to Mars is projected to take place by
2020 What are the long term effects and solution to space debris
if life projects out beyond Earth This sub ndash theme also invites
applicants to consider the abstract and metaphorical imaginings of
health in contemporary and future societies
6
Nobel Laureate Dr Harold Varmus recognized for his research on
retroviruses and the genetic basis of cancer gave a lecture on ldquoRecent
Developments in Cancer Researchrdquo at National Institute of Immunology
(NII) New Delhi an event co-organised by NII Wellcome TrustDBT
India Alliance and Department of Biotechnology Government of
India His lecture largely gave an overview of the recent
developments challenges and the future directions in the field of
cancer research which included the current research of his group in
this area
Dr Varmus who had spent time in Bareilly as a young medical
student described cancer as a complex disease that requires
innovative research and treatment strategies At the outset Dr Varmus
introduced the key questions that drive the cancer research field- Is
cancer one disease or many diseases What makes the cancer cell
grow so stably in such an inappropriate manner How does a normal
cell become a cancer cell Providing answers to these questions
formed the backdrop of Dr Varmus‟s lecture which drew from his
research work till date and other advances in the field
Dr Varmus entered the field of cancer research in 1970s as a
postdoctoral scientist in the laboratory of Dr John J Michael Bishop at
University of California San Francisco USA the same year National
Cancer Act was signed in the country Dr Bishop and Dr Varmus
together received the Nobel Prize in Medicine and Physiology in
1989 ldquofor their discovery of the cellular origins of retroviral
oncogenesrdquo During his lecture Dr Varmus confessed standing on the
shoulders of giants of retroviral and cancer research such as Dr
Peyton Rous Dr Harry Rubin and Dr Howard Temin to ask the question
of how retroviruses transformed cells and cause tumours This question
led him to look for genes that make a normal cell behave like a
cancer cell which initially involved studying cancer-causing RNA
virusesretroviruses in animals The retrovirus that played a lead role
in Dr Varmus and his colleague‟s work was the Rous Sarcoma Virus
(RSV) discovered by Dr Peyton Rous in 1911 which he showed caused
a type of cancer in chickens Dr Varmus and colleagues set out to
prove the hypothesis that retroviruses enter host cells and capture
normal genes in that cell by inserting their DNA converting them into
cancer-causing genes or oncogenes Dr Varmus and his group
employed various cellular chemical as well as genetic tools to
establish that retroviruses can indeed act as mutagens by inserting
their DNA in host cells and turning them into cancer cells After this his
group went on to identify the cancer-causing genes present in the
virus and subsequently discovered many new oncogenes v-Src (a
gene of RSV) being the first one Following these discoveries and
subsequently many others led to the belief that the genetic basis of
cancer is highly heterogeneous Dr Varmus told us that in order to
catalogue these complexities the Cancer Genome Atlas was
established in 2005 which till today serves as a collection of the
genetic mutations responsible for different cancers
Apart from the complexity and vastness of the cancer genome
other challenges in the field according to Dr Varmus are genetic
heterogeneity and evolution of tumours due to various environmental
factors such as exposure to UV pollution tobacco use and other
environmental carcinogens that are on the rise He used the example
of renal tumor evolution which illustrates Darwin‟s theory of ldquoevolution
of speciesrdquo to show that this rapidly changing genetic repertoire can
have significant impact on diagnosis therapeutic interventions and
prognosis Another issue of concern highlighted by Dr Varmus was the
absence of suitable drugs against many common targets for cancer
such as cancer-causing RAS genes and many transcription factors
which have been shown to contribute towards cancer formation Dr
Varmus opined that lack of understanding of the underlying
complexity of resistance to cancer therapies is another roadblock in
cancer treatment He was also strongly of the opinion that there are
not enough public health interventions to prevent cancer- this he felt
needs to go hand in hand with finding cure for cancer
Dr Varmus also offered solutions to these problems He suggested
that research needs to ldquolook beyond genes and focus on patterns and
pathwaysrdquo and physiological changes taking place in cancer cells He
shared his group‟s current interest in studying ldquooncogene addictionrdquo
which is based on the premise that some oncogenes not only give rise
to cancer but also maintain the cancerous state of the cells
Interpreting the downstream effects of these cancer genes on the
pathways could be employed as a strategy to attack multiple targets
by drugs in different cancers Even though he hailed the successes of
many commonly used and extremely efficacious anti-cancer drugs
such as Gleevec Gefitinib Erlotinib but in light of growing
complexity of the disease proposed the need for adopting more
innovative drug discovery and treatment approaches Continuing on
the topic of therapeutics Dr Varmus mentioned the recent advances in
immunotherapeutic approaches to treat cancer which would require
us to understand why the otherwise combative immune system does
not kill cancer cells He suggested that gaining understanding of these
immune check points and accordingly targeting them by antibody
inhibitors could serve as one more effective treatment strategy-
another project his research group has undertaken In addition to
these therapeutic approaches Dr Varmus very strongly asserted that
ldquonot everything we talk about cancer should be about cancer therapy
but also about preventionrdquo and that this disease ought to be on the
global health agenda
Dr Varmus very eloquently concluded his talk by stating that
ldquoconfronting cancer needs a balance between grasping its complexity
and seeking simple solutionsrdquo As expected he received many
questions from the audience after his lecture on the genetics and
biology of various cancers potential use of vaccines in cancer
treatment crosstalk of cancer with other diseases and many others to
which he responded with prudence and an underlying sense of
optimism
Prior to his lecture Dr Varmus over an hour meeting with 10 young
cancer researchers discussed their work This group included the
following Wellcome TrustDBT India Alliance Fellows - Dr Reety Arora
(ECF InStem Bangalore) Dr Anjali Bajpai (ECF IIT Kanpur) Dr
Bushra Ateeq (Int Fellow IIT Kanpur) Dr Kundan Sengupta (Int Fellow
IISER Pune) and Dr Sandeep Singh (Int Fellow NIBMG Kalyani) Dr
Varmus also sought information on the India Alliance Fellowships and
was impressed by its funding model and reach
LECTURE REPORT
Recent Developments in Cancer Research By Dr Harold Varmus Nobel Prize in Medicine and Physiology Weill Cornell Medical College USA
at
National Institute of Immunology New Delhi
16 November 2015
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
7
ASK THE SCIENTIST about
The Human Brain
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
This section will bring to you answers to those burning scientific questions that you always wanted to ask the guys in the white
coat For this issue we asked some of our Fellows to shed light on the various operations of the brain
How can we measure attention
DR SUPRATIM RAY Indian Institute of Science Bangalore
Intermediate Fellow
Attention can be of different types such as sustained (vigilance)
selective (focusing at one stimulus in the presence of distractors) or
alternating (involves switching) which can be measured using a
variety of cognitive tests (such as test of everyday attention (TEA) or
Posner cuing task) For example in a classical Posner task a subject
is repeatedly shown two stimuli and cued to attend to one of them
and instructed to respond to a change in the stimulus (say by
pressing a button) The cue could be valid (change occurs at the cued
stimulus say for 80 of the trials) invalid (change occurs at the
uncued stimulus) or neutral (ambiguous) Selection attention can be
measured by comparing the accuracy and the time taken to press
the button after stimulus change (called reaction time) for different
cue types
Different components of attention such as orienting towards a
location detecting a target or maintaining vigilance are carried out
by distinct brain areas in the prefrontal and parietal lobes and some
sub-cortical structures (such as superior colliculus) Overall
performance depends not only on how these areas perform but also
how they communicate with each other and on the levels of
neuromodulators such as norepinephrine
How can we sense smell Is it possible to live without this
sense of smell
DR NIXON ABRAHAM Indian Institutes of Science Education amp
Research (IISER) Pune
Intermediate Fellow
Once Dr Lewis Thomas (1913-1993) the poet and a philosopher of
medicine who also served as the dean of the medical schools at the
New York University and Yale was asked to select seven wonders of
the modern world Olfaction (olfactory receptor cell) was fifth in his
list How does the modern fifth wonder that brings us the smell of our
surroundings ndash the good and bad work
The process of making sense of smell start by binding the odor
molecules to the olfactory receptors located in the olfactory sensory
neurons (OSNs) in the nose This binding triggers a series of signal
amplification steps which lead to electrical spikes (so called action
potentials) in OSNs This olfactory information whose intensity is
encoded by varying the number of action potentials is then passed
onto the projection neurons named mitral and tufted cells in the
olfactory bulb These projection neurons whose excitatory actions
are controlled by various inhibitory neurons carry the olfactory
information to the higher centers in the brain so that we perceive the
smell of spicy tasty food and putrid garbage ndash the good and bad
from the environment
Continued
9
Brain waves
measured by EEG
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
What is really happening inside the brain of a Schizophrenia
patient Does it look any different from a normal brain
DR VENKATASUBRAMANIAN GANESAN NIMHANS Bengaluru
Intermediate Fellow
The brain of a schizophrenia patient is reduced in overall volume
with increase in the size of the ventricles (parts of the brain that
contain cerebrospinal fluid) however certain parts like hippocampus
superior temporal gyrus and prefrontal cortex are more affected
than others Using certain advanced brain imaging research studies
(for example high resolution structural MRI functional MRI Magnetic
Resonance Spectroscopy Positron Emission Tomography and Diffusion
Tensor Imaging and similar others) subtle brain abnormalities in
structure function neurochemical profile as well as brain connectivity
have been demonstrated in several brain regions in schizophrenia
patients It is important to note that these findings are obtained
from advanced research studies that have compared brains of a
Why are the mirror neurons called the Minds mirror What do
they reflect
DR URVAKHSH MEHTA National Institute of Mental Health amp
Neurosciences (NIMHANS) Bengaluru
Early Career Fellow
Mirror neurons are specialized nerve cells that discharge when
we perform actions as well as when we observe others perform the
same action Rizzolatti and colleagues accidentally discovered them
in monkeys These neurons also get vicariously activated when we
perceive emotional states of others This unique bdquoexperience sharing‟
property of mirror neurons perhaps enables us to decipher goals
intentions and emotions of others
In several of our daily social interactions we need to take
perspectives of others decipher deception share feelings and
empathize with others The mirror neuron system is an important
brain network that helps us peek into the minds of others and try to
understand people They translate sensory information (eg
observation of an action) into a motor template which is similar to
the format an observer himself uses to perform that very action This
motor template can help us interpret the goals and feelings
underlying observed actions The definitive demonstration of mirror
neurons in humans was as recent as 2010 There is also growing
evidence of a dysfunctional mirror neuron system in psychiatric
disorders like autism and schizophrenia It is a long and exciting
future ahead to decipher spatiotemporal regulatory and genetic
underpinnings of this unique neuronal network ndash this will possibly
help understand and treat social brain disorders better
Schizophrenia
What happens if we loose our sense of smell Loss of olfaction can
be caused by many reasons ranging from viral infections to
neurodegenerative disorders As our emotions and memories are
strongly related to olfaction the loss of this sense can lead to
depressed state and even affect bonding with family members Just
imagine sipping from your morning coffee without sensing it‟s aroma
- our taste could be badly affected by losing sense of smell The
ongoing research at the nasal stem cell level might provide clinical
solutions for the disorders of the olfactory sensory neurons to regain
this wonderful sense
group of schizophrenia patients with that of healthy subjects thus
these are group averaged findings that are currently not applicable
for diagnosing schizophrenia in an individual patient in a regular
clinical setting In ldquoa specific patientrdquo one may not be able to find
any striking abnormality in the physical appearance of the brain (ie
a routine CT or MRI brain scan may not be able to identify any
obvious aberration) Several ongoing research studies are in pursuit
to identify clinically useful biomarker to diagnose schizophrenia
Find out more about Dr Ganesan‟s research on schizophrenia here
Do you have a burning scientific
question
Send them to
publicengagementwellcomedbtorg
Mirror neuron activity in the brain both when the monkey grasps an object
and when it observes the experimenter grasping the object Mirror neurons
were first discovered by Rizzolatti and colleagues when they were studying
motor actions in macque monkeys
10
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
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Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
CONTENTS
3 INDIA ALLIANCE CALL FOR APPLICATIONS
Clinical and Public Health Research Fellowships 2016
4 INDIA ALLIANCE RECOMMENDED FELLOWSHIP AWARDEES
Clinical and Public Health Research Fellowship Intermediate (Basic) Fellowship
5 IN CONVERSATION WITH
Dr Aravinda Chakravarti Director Center for Complex Disease Genomics amp Professor of Medicine
at Johns Hopkins University School of Medicine
7 SCIENCE COMMUNICATION
New Nature India-India Alliance workshop SciComm Hyderabad SciComm101 workshop
announcements
8 PUBLIC ENGAGEMENT CORNER
Art amp Science project Harold Varmus Lecture report Ask the Scientist
12 INDIA ALLIANCE FELLOW IN SPOTLIGHT
Dr Roop Malik Senior Fellow TIFR Mumbai
13 FEATURE ARTICLE
ldquoA Sponge Against a Sword rdquo
by Dr Partho Sarothi Roy Intermediate Fellow IISER Kolkata
15 INDIA ALLIANCE STAFF CORNER
Dr Sujatha Reddy Grants Adviser India Alliance
16 EXTERNAL EVENTS
First Foldscope Workshop in India- report Medicine Corner Exhibition Trick or Treat workshop
2
Eligibility
Eligibility limit covers the entire range of Clinical and Public
Health Research Fellowship schemes
bull No age or Nationality restrictions
bull The candidates need not be resident in India while
applying but should be willing to establish an
independent research career in India
bull Clinicians and Public health researchers do not require a
PhD to apply
bull This competition is open for clinicians and public health
researchers with up to 15 years of post-
MDMSMPHPhD or equivalent clinical public health
research experience
bull The Applicants are advised to choose the most
appropriate scheme suitable for them based on their
qualification research experience career trajectory and
track record Please refer to the guidance notes
provisions and mandate of the scheme for assessing your
eligibility on the website The Office reserves the right to
advice on the suitability of the scheme accordingly
Early Career Fellowship This scheme provides a unique
opportunity for those who have shown promise to pursue
research and wish to further their efforts to build a research
career under the supervision of a Fellowship
supervisor Guidance note Suitable for applicants in the final
year PhDMDMSMPH or have up to 4 years of relevant
experience
Intermediate Fellowship For those who have been
successful in building a track record of pursuing a cutting
edge research and wish to establish their own independent
clinicalpublic health research program in India Guidance
note Suitable for applicants with 4-7 years of relevant
experience
INDIA ALLIANCE FELLOWSHIP ANNOUNCEMENT
CALL FOR APPLICATIONS
Application forms are available on the India Alliance online
application System (IASys) at
httpsfellowshipswellcomedbtorgLoginaspx
Please visit our website for further information on the application process Please write to us with
queries to infowellcomedbtorg
3
CLINICAL AND PUBLIC HEALTH RESEARCH FELLOWSHIPS 2016
Preliminary Application Deadline 1 March 2016
India Alliance invites applications for three Fellowship schemes
Early Career Fellowships Intermediate Fellowships and Senior Fellowships
Senior Fellowship For those who have demonstrated their
potential to lead an independent research program and
want to expand it further to undertake pioneering research
Guidance note Suitable for applicants with 7-15 years of
relevant experience
Remit Full spectrum of biomedical science involving clinical
and public health research
Provisions
bull These Fellowships would encourage interested clinicians
to pursue their research goals in combination with their
clinical duties
bull Competitive personal support
bull Generous research support with flexibility to
accommodate requirements of clinical and public health
research
bull Flexibility to request additional support staff
bull Support training cost and research sabbatical
bull Funds for International training and travel
bull Opportunity to pursue a PhD on the India Alliance
funded research
Essentials on the application
bull A research proposal that seeks to answer an original
biomedical research question
bull A not-for-profit Host Institution in India that will
administer the Fellowship for the full duration of the
award A salaried position or commitment to a salaried
position at the Host Institution is not required
bull A Sponsor at the Host Institution who can guarantee
space and resources for the duration of the award
bull In case of an Early Career Fellowship a Fellowship
Supervisor who can guarantee access to laboratory
space and resources required for the project as well as
provide relevant scientific guidance for the tenure of the
Fellowship
CLINICAL AND PUBLIC HEALTH RESEARCH FELLOWSHIPS
Early Career Fellowships
Dr Jayanth Kumar Palanichamy All India Institute of Medical Sciences New Delhi
Dr Aparna Mukherjee All India Institute of Medical Sciences New Delhi
Dr Deepak Kamath St Johns National Academy Of Health Sciences Bangalore
Intermediate Fellowships
Dr Aparna Rao L V Prasad Eye Institute Bhubaneswar
Dr Abi Vanak Ashoka Trust for Research in Ecology and the Environment Bangalore
Dr Shivarama VaramballyNational Institute of Mental Health and Neurosciences Bangalore
Dr Rashmi Rodrigues St Johns National Academy Of Health Sciences Bangalore
Dr Mahesh Kate Christian Medical College Ludhiana
Research Training Fellowships
Ms Urvita Bhatia Sangath Porvorim
Dr Deepak Gautam All India Institute of Medical Sciences New Delhi
Dr Sumsum P Sunny Mazumdar Shaw Medical Center Bangalore
Dr Dhruva Ithal National Institute of Mental Health and Neurosciences Bangalore
Dr Rakshathi B National Institute of Mental Health and Neurosciences Bangalore
ANNOUNCEMENT
RECENTLY RECOMMENDED AWARDEES
BASIC RESEARCH FELLOWSHIPS
Intermediate Fellowships
Dr Sridharan Devarajan Indian Institute of Science Bangalore
Dr Nitin Gupta Indian Institute Of Technology Kanpur
Dr Sachin Kotak Indian Institute of Science Bangalore
Dr Aravind Penmatsa Indian Institute of Science Bangalore
Dr Siddhesh Shashikant Kamat Indian Institute of Science Education and Research Pune
Dr Mohan Joshi Centre for DNA Fingerprinting and Diagnostics Hyderabad
Dr Satish Khurana Indian Institute of Science Education and Research Thiruvananthapuram
Dr Pinky Kain Indian Institute of Technology Roorkee
Dr Santosh Chauhan Institute Of Life Sciences Bhubaneswar
India Alliance announced Fellowship Awardees of the Clinical and Public Health Research Fellowship
scheme and Intermediate Fellowship under the Basic Biomedical Research competition in December 2015
The interviews for these Fellowship schemes were held in November 2015
indicates institution that before this award did not have any India Alliance Fellow
4
MARGADARSHI FELLOWSHIP
Prof Satyajit Mayor National Centre for Biological Science Bangalore
IN CONVERSATION WITH
Dr Aravinda Chakravarti
Dr Aravinda Chakravarti is a Professor of Medicine Pediatrics Molecular Biology amp Genetics and Biostatistics and Director Center
for Complex Disease Genomics at the Johns Hopkins University School of Medicine and the Bloomberg School of Public Health He
also has a long association with the India Alliance as a member of its Clinical and Public Health Research Fellowship committee
What motivated you to become a scientist
I cannot say that it was any one person or one event or any one
point of time that led me to consider doing science Nor did I know
what being a scientist would entail or how one prepared to become
one I was not interested in science nor good at it or anything else for
that matter before the 9th grade But subsequently it was the
concreteness and logic of mathematics and the sciences that
appealed to me I also began reading material outside my textbooks
such as books in the Nuffield Science Series and others I came across
in the Calcutta British Council Library which began giving me a
broader look at the world of science But I was still clueless This was
evident in my applying for almost every conceivable program for
college (Engineering Medicine Geology Agriculture Physics and
Statistics) and being selected but not necessarily into the best schools
or programs Thus bdquosuccess‟ did not clarify my thinking any one bit
Finally I did choose to attend the Indian Statistical Institute (ISI)
outside Calcuttahellipa then beautiful oasis of calm in the politically
turbulent Calcutta of 1970‟s when being young well-read and aware
were enough to raise suspicions in the Calcutta Police (For those who
doubt the serious and mortal danger all young people in Calcutta
were under during this time read the daily newspaper reports from
the 70‟s)
For me Indian Statistical Institute (ISI) was
an escape from reality and an entry into a
synthetic artificial and manufactured world
of quantitative ideas
Our courses over 4 years in a US-style undergraduate were 50
Mathematics and Statistics and 50 an assortment of sciences and
economics (to learn the various domains in which quantitative
reasoning would be critical) where we were taught to ask bdquowhy‟ not
only bdquohow‟ something worked For the first time I found myself in an
atmosphere where understanding mattered more than knowledge
(dont worry knowledge did matter greatly) the pursuit of a job was
a side issue and we were encouraged to discover any area we
wished (or thats how I felt) I also had passionate teachers who were
the very best in the world For the first time I felt liberated learning
was fun and pursuing science as a life seemed like the only natural
thing to do It wasnt a one day transformationhellipby the time I left ISI I
knew that I could ask and answer at least some questions ISI was the
institution where the famed British polymath and geneticist J B S
Haldane came to in 1957 and became one of the architects of my
undergraduate program Although Haldane died in 1964 his ghost
was still around when I was a student at the ISI That I would do
genetics and be a scientist particularly in human genetics was
therefore a no brainer
Could you briefly take us through your scientific journey and
about your interest in genetics
My interest in genetics was established at the ISI but no less fueled by
my reading of Jim Watson‟s The Double Helix in 1970 and then as
credited by Watson and Crick Erwin Schrodinger‟s What is Life As a
student of the quantitative sciences at ISI the part of genetics that
appealed to me (simply because I could digest it) was Population
Genetics Also ISI had a Department of Human Genetics that
performed numerous studies of human genetic molecular diversity
across populations in India So my early training was in studies of
human population diversity Nevertheless Haldane‟s research (that I
was increasingly becoming aware of) was equally in family studies
that exemplified mechanisms not evident in population studies So as
a student I conducted and published research into the inheritance of
simply observable traits (bdquohand clasping‟ or the phenotype where you
classify individuals by whether they fold their left thumb over their
right or vice versahelliptry it only one way feels correct) just to learn
genetics and to attempt to combine the family and the population
methods that are so common today Fortunately by this time I had left
myself few opportunities to be interested in doing anything else but
human genetics
5
IN CONVERSATION WITH Dr Aravinda Chakravarti
Being rejected by several programs to study genetics in India
(because I was not a biology undergraduate) I chose to do graduate
work with the noted geneticist and molecular evolutionist Masatoshi
Nei at the University of Texas Houston where he had just moved I
arrived in Houston in 1974 and was immediately thrust into a small
intense center with brilliant people and expected to perform research
at a level I was surely unaccustomed to This group was the epicenter
of the then neutralist-selectionist debate in molecular evolution a
problem that was exciting but not my cup of tea I wanted to study
human genetics and finally fashioned a research project with Nei that
explored the theoretical consequences of improved genetic counseling
with linkage and association (linkage disequilibrium) markers and
graduated with a PhD in 1979 This research was not only far ahead
of its time coming before the proposal of creating a human linkage
map using RFLPs (restriction fragment length polymorphism) in 1980
but I was the only Nei student who worked outside molecular
evolution In many ways then my development in genetics became
very broad and haphazard since I often focused on areas that were
not my primary training grounds
By this time I was a geneticist but thought I needed further training in
genetic epidemiology to understand human disease better However
after an unsuccessful postdoc at Seattle I abandoned this idea to
take a non-tenured teaching position at the University of Pittsburgh
thinking that the bdquofree‟ time I would have would allow me to catch up
on the revolution in recombinant DNA technology that was underway I
am glad I did since this was one of the best
professional decisions I made by forgoing
the standard path
I taught at Pittsburgh for 5 years and subsequently obtained an NIH
Research Career Development Award to pursue a research career
That began my standard research career in human genetics
What according to you are the challenges in your field of
research
The field of human genetics is not the one I trained in since so much
has changed with the sequencing of the human genome Human
genetics has two distinct themes one descriptive as to the causes of
human variation be it molecular or phenotypic (the bdquohow‟ question)
and a second mechanistic as to how variation in molecular
mechanisms impact phenotype variation particularly disease (the
bdquowhy‟ question) The whole attraction of the human genome project to
me and others like me who spent more than a decade on building the
now available community resources (maps clones sequences variants
transcripts etc) was to move from the first set to the second set of
questions This transformation is difficult since it is not in the comfort
zone of conventional human genetics its hard and unpredictable
much more hypothesis-driven and much more experimental The
challenge in my field and in many associated medical specialties is
that it‟s far easier to do the first then the second Scientists are voting
with their feet Human geneticists are far more content in sequencing
human genomes finding associations with disease and doing facile
functional annotation than a serious investigation into why does this
gene causes type 2 diabetes and the next one congenital cataract
Or why mutations in the same gene cause a neuroendocrine tumor
when activating but congenital aganglionosis when loss-of-function
Or how come the same mutation can act as either activating or loss-
of-function
The biggest challenge in my field is to
overcome the inertia that molecular
description = etiological explanation
If you were not a scientist you would behellip
I really have no idea I presume the Bengali in me implicitly wants
or always wanted to be a writer but that would be a great leap of
faith and quite arrogant Even good scientific writing is hard very
hard indeed I have often read someone else‟s paper that I enjoyed
and thought that I could have done the same work a similar thought
has not appeared after reading someone else‟s creative work except
when it is quite bad
5 What is the best advice you have ever received
Unfortunately most advice that most people get and give is bad
More correctly its difficult to know (what‟s the test) when it is good
and when bad Each of us likely adapt a post-hoc explanation to our
stories all of which are likely revisionist Nevertheless two different
people (a brother and a family friend) at about the same time
(1979-1982) told me to abandon what I was doing (an unsuccessful
postdoc and forcing myself to complete reading a fairly racist
account of the Black Hole of Calcutta) because it was beyond my
enjoyment They both suggested that I drop it and do something else
One should not shoulder a burden that is great unless some higher
purpose is at stake One needs to learn how to apportion risk with
benefit
Your message for young students and researchers
Science is difficult but exhilarating in its rare moments of success
and it‟s usually followed by long periods of stasis It is a great but
frustrating life and there are many worse ways of making a living It
is like other types of creative endeavors where discovery is real but
rare If you wish to do it be sure you can enjoy its moods Science
today is also multidisciplinary and translational its application to
humans and other benefits can also be tangible sources of pride But
do it not for these benefits do it because the science gives you great
joy Yes joy Consider that you are one in an
unbroken intellectual chain from Johannes
Kepler and Isaac Newton If you choose
science you are special
Dr Chakravarti‟s laboratory focuses on the development and
applications of molecular genetic genomic and computational
methods for identification of human disease genes through
genetic dissectionldquo He has been a key participant and architect
of the Human Genome HapMap and 1000 Genomes project Find
out more about his research here
6
Workshop at a glance One-day workshop to equip young science
researchers with tools and strategies for effective communication of
their ideas experiments and scientific results from a science
communication perspective Help them to make science career choices
Vision Science communication plays an integral role in one‟s scientific
career Being able to effectively disseminate research findings within
the community and to consider collective opinions in prioritising
research needs is an important attribute of scientific maturity In
keeping with its mandate to empower future leaders of Indian science
the Wellcome TrustDBT India Alliance periodically conducts one-day
(SciComm101) and two-day (SciComm Hyderabad) science
communication workshops for the past four years This complements
seamlessly with Nature India‟s mandate to showcase India‟s science bdquoas
it happens‟ in laboratories and institutions across the country through
in-depth coverage and analysis of research and science policy The
proposed workshop would be part of Nature India‟s many
communication outreach activities as the one-stop media platform for
India‟s science
The Wellcome TrustDBT India Alliance and Nature India both
represent possibilities for young PhD scholars and postdoctoral
scientists to transition into academic as well as non-academic science
careers Information and advice on how to explore various career
options will form an important part of these workshops with
Naturejobs as the key organiser of the career session
Structure amp format
The workshop will be a one-day event preceding a biomedical (or
scientific) conference organised by reputed science
societiesorganisationsinstitutes and Universities in India A large
participation by PhD students postdoctoral fellows and junior
scientists will be a pre-requisite for holding this workshop Organising
this workshop as part of a conference will ensure participation from a
wide range of institutions across India The workshop will include 3
separate sessions
Session 1 Scientific Writing (moderated by WTDBT Alliance)
Topics to be covered
bull Ethics in research
bull Presentation skills
bull Manuscript writing
bull Grants writing
bull CVs and letters
Session 2 Science Communication (moderated by Nature India)
Topics to be covered
bull Science journalism
bull Popular science writing
bull Effective press releases
bull Hands-on skills on dejargonising science
Session 3 Alternate Science Career (moderated by Nature Jobs)
Topics to be covered
bull Career in the Industry
bull Career in Science PromotionIntellectual Property
bull Career in PolicyGrant organizations Journalism
Science Communication and Career Workshop Series (In partnership with Nature India amp Naturejobs )
Please contact us at workshopswellcomedbtorg to find out more about this series
INDIA ALLIANCE
SCIENCE COMMUNICATION
SciComm101 workshop
10 March 2016 MSU Baroda
Two-day SciComm workshop
21-22 March 2016 Hyderabad Applications under review
For more details visit SciComm Workshop under Quick Links on our website
Upcoming Workshops
5
ABOUT THE ART amp SCIENCE PROJECT
CALL FOR APPLICATIONS THE UNDIVIDED MIND |ART +
SCIENCE RESIDENCY AT KHOJ
Residency Dates March 2nd ndash April 2nd 2015
Application Deadline February 2nd 2015
Proposals are invited for bdquoThe Undivided Mind‟ a four-week
international residency for artists whose work explores the
intersection of art and science
At first it may seem that the pairing of Art amp Science is an atypical
choice as the two fields and methods of practice have almost
universally been represented as diametric opposites of each other
However on closer examination the similarities between artists and
scientists far outweigh their stereotypical differences Both are
dedicated to research and to asking the big question- what is true
Why does it matter How can we move society forward Moreover
both the lab and the studio are spaces that famously encourage
open-ended enquiry and emphasis on process In tune with Khoj‟s
commitment to cultivate an environment that allows for
experimentation and innovation the Art amp Science residency will be
a step towards furthering the explorations of interdisciplinary
practitioners This is the second edition of a Khoj residency focusing
on Art + Science to know more about the first edition please
click bdquohere‟
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
The following India Alliance Fellows will be participating in the
project
(NOTE If an applicant wishes to connect with any of the following
researchers in advance of submitting their proposal please contact
the Khoj team at bdquoapplicationskhojworkshoporg‟ for an
introduction please do the same if you are a scientist and would like
take part in this project )
Dr Venkatasubramanian Ganesan National Institute of Mental
Health and Neurosciences (NIMHANS) Bangalore
Dr Pallab K Maulik The George Institute for Global Health New
Delhi
Dr Anurag Agarwal CSIR-Institute of Genomics amp Integrative
Biology (IGIB) New Delhi
Dr Tavpritesh Sethi All India Institute of Medical Sciences (AIIMS)
New Delhi
Dr Lolitika Mandal Indian Institute of Science Education and
Research (IISER) Mohali
Dr Urvakhsh MehtaNIMHANS Bangalore
Dr Sheetal Gandotra IGIB New Delhi
Visit Khoj website to find out more about the residency and the application process
Apply by
2 February 2016
India Alliance is pleased to announce its support for Art amp Science Project at Khoj International Artists Association New Delhi details of
which can be found below and on the Khoj website It promises to be a great platform for interdisciplinary dialogue and exchange
between scientists and artists and we encourage anyone interested to apply (artists) and get involved (scientists)
THEME
The theme of the 2016 edition of The Undivided Mind is bdquoHealth‟
Within this broader framework three curatorial frameworks or
modes for exploration are suggested Terrestrial Health refers to
that which is on or related to the earth This sub ndash theme suggests an
investigation into the physical health and structure of the body (both
human and animal) the environment the community and the
interrelations between these spheres Mental Health refers to that
which is of or relating to the mind This sub ndash theme focuses on a
psychological investigation of what constitutes Health of the mind
and raises questions about the bdquosocially‟ defined state of well-being
where issues‟ surrounding the legal rights and entitlement of
personhood for those living with a mental disorder is open for
debate Finally Extraterrestrial Health may refer to any object
being or idea beyond the planet Earth This sub ndash theme opens up a
space where the relationship between Earth and other planetary
bodies can be studied What does it mean for human existence when
sending human life forms to Mars is projected to take place by
2020 What are the long term effects and solution to space debris
if life projects out beyond Earth This sub ndash theme also invites
applicants to consider the abstract and metaphorical imaginings of
health in contemporary and future societies
6
Nobel Laureate Dr Harold Varmus recognized for his research on
retroviruses and the genetic basis of cancer gave a lecture on ldquoRecent
Developments in Cancer Researchrdquo at National Institute of Immunology
(NII) New Delhi an event co-organised by NII Wellcome TrustDBT
India Alliance and Department of Biotechnology Government of
India His lecture largely gave an overview of the recent
developments challenges and the future directions in the field of
cancer research which included the current research of his group in
this area
Dr Varmus who had spent time in Bareilly as a young medical
student described cancer as a complex disease that requires
innovative research and treatment strategies At the outset Dr Varmus
introduced the key questions that drive the cancer research field- Is
cancer one disease or many diseases What makes the cancer cell
grow so stably in such an inappropriate manner How does a normal
cell become a cancer cell Providing answers to these questions
formed the backdrop of Dr Varmus‟s lecture which drew from his
research work till date and other advances in the field
Dr Varmus entered the field of cancer research in 1970s as a
postdoctoral scientist in the laboratory of Dr John J Michael Bishop at
University of California San Francisco USA the same year National
Cancer Act was signed in the country Dr Bishop and Dr Varmus
together received the Nobel Prize in Medicine and Physiology in
1989 ldquofor their discovery of the cellular origins of retroviral
oncogenesrdquo During his lecture Dr Varmus confessed standing on the
shoulders of giants of retroviral and cancer research such as Dr
Peyton Rous Dr Harry Rubin and Dr Howard Temin to ask the question
of how retroviruses transformed cells and cause tumours This question
led him to look for genes that make a normal cell behave like a
cancer cell which initially involved studying cancer-causing RNA
virusesretroviruses in animals The retrovirus that played a lead role
in Dr Varmus and his colleague‟s work was the Rous Sarcoma Virus
(RSV) discovered by Dr Peyton Rous in 1911 which he showed caused
a type of cancer in chickens Dr Varmus and colleagues set out to
prove the hypothesis that retroviruses enter host cells and capture
normal genes in that cell by inserting their DNA converting them into
cancer-causing genes or oncogenes Dr Varmus and his group
employed various cellular chemical as well as genetic tools to
establish that retroviruses can indeed act as mutagens by inserting
their DNA in host cells and turning them into cancer cells After this his
group went on to identify the cancer-causing genes present in the
virus and subsequently discovered many new oncogenes v-Src (a
gene of RSV) being the first one Following these discoveries and
subsequently many others led to the belief that the genetic basis of
cancer is highly heterogeneous Dr Varmus told us that in order to
catalogue these complexities the Cancer Genome Atlas was
established in 2005 which till today serves as a collection of the
genetic mutations responsible for different cancers
Apart from the complexity and vastness of the cancer genome
other challenges in the field according to Dr Varmus are genetic
heterogeneity and evolution of tumours due to various environmental
factors such as exposure to UV pollution tobacco use and other
environmental carcinogens that are on the rise He used the example
of renal tumor evolution which illustrates Darwin‟s theory of ldquoevolution
of speciesrdquo to show that this rapidly changing genetic repertoire can
have significant impact on diagnosis therapeutic interventions and
prognosis Another issue of concern highlighted by Dr Varmus was the
absence of suitable drugs against many common targets for cancer
such as cancer-causing RAS genes and many transcription factors
which have been shown to contribute towards cancer formation Dr
Varmus opined that lack of understanding of the underlying
complexity of resistance to cancer therapies is another roadblock in
cancer treatment He was also strongly of the opinion that there are
not enough public health interventions to prevent cancer- this he felt
needs to go hand in hand with finding cure for cancer
Dr Varmus also offered solutions to these problems He suggested
that research needs to ldquolook beyond genes and focus on patterns and
pathwaysrdquo and physiological changes taking place in cancer cells He
shared his group‟s current interest in studying ldquooncogene addictionrdquo
which is based on the premise that some oncogenes not only give rise
to cancer but also maintain the cancerous state of the cells
Interpreting the downstream effects of these cancer genes on the
pathways could be employed as a strategy to attack multiple targets
by drugs in different cancers Even though he hailed the successes of
many commonly used and extremely efficacious anti-cancer drugs
such as Gleevec Gefitinib Erlotinib but in light of growing
complexity of the disease proposed the need for adopting more
innovative drug discovery and treatment approaches Continuing on
the topic of therapeutics Dr Varmus mentioned the recent advances in
immunotherapeutic approaches to treat cancer which would require
us to understand why the otherwise combative immune system does
not kill cancer cells He suggested that gaining understanding of these
immune check points and accordingly targeting them by antibody
inhibitors could serve as one more effective treatment strategy-
another project his research group has undertaken In addition to
these therapeutic approaches Dr Varmus very strongly asserted that
ldquonot everything we talk about cancer should be about cancer therapy
but also about preventionrdquo and that this disease ought to be on the
global health agenda
Dr Varmus very eloquently concluded his talk by stating that
ldquoconfronting cancer needs a balance between grasping its complexity
and seeking simple solutionsrdquo As expected he received many
questions from the audience after his lecture on the genetics and
biology of various cancers potential use of vaccines in cancer
treatment crosstalk of cancer with other diseases and many others to
which he responded with prudence and an underlying sense of
optimism
Prior to his lecture Dr Varmus over an hour meeting with 10 young
cancer researchers discussed their work This group included the
following Wellcome TrustDBT India Alliance Fellows - Dr Reety Arora
(ECF InStem Bangalore) Dr Anjali Bajpai (ECF IIT Kanpur) Dr
Bushra Ateeq (Int Fellow IIT Kanpur) Dr Kundan Sengupta (Int Fellow
IISER Pune) and Dr Sandeep Singh (Int Fellow NIBMG Kalyani) Dr
Varmus also sought information on the India Alliance Fellowships and
was impressed by its funding model and reach
LECTURE REPORT
Recent Developments in Cancer Research By Dr Harold Varmus Nobel Prize in Medicine and Physiology Weill Cornell Medical College USA
at
National Institute of Immunology New Delhi
16 November 2015
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
7
ASK THE SCIENTIST about
The Human Brain
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
This section will bring to you answers to those burning scientific questions that you always wanted to ask the guys in the white
coat For this issue we asked some of our Fellows to shed light on the various operations of the brain
How can we measure attention
DR SUPRATIM RAY Indian Institute of Science Bangalore
Intermediate Fellow
Attention can be of different types such as sustained (vigilance)
selective (focusing at one stimulus in the presence of distractors) or
alternating (involves switching) which can be measured using a
variety of cognitive tests (such as test of everyday attention (TEA) or
Posner cuing task) For example in a classical Posner task a subject
is repeatedly shown two stimuli and cued to attend to one of them
and instructed to respond to a change in the stimulus (say by
pressing a button) The cue could be valid (change occurs at the cued
stimulus say for 80 of the trials) invalid (change occurs at the
uncued stimulus) or neutral (ambiguous) Selection attention can be
measured by comparing the accuracy and the time taken to press
the button after stimulus change (called reaction time) for different
cue types
Different components of attention such as orienting towards a
location detecting a target or maintaining vigilance are carried out
by distinct brain areas in the prefrontal and parietal lobes and some
sub-cortical structures (such as superior colliculus) Overall
performance depends not only on how these areas perform but also
how they communicate with each other and on the levels of
neuromodulators such as norepinephrine
How can we sense smell Is it possible to live without this
sense of smell
DR NIXON ABRAHAM Indian Institutes of Science Education amp
Research (IISER) Pune
Intermediate Fellow
Once Dr Lewis Thomas (1913-1993) the poet and a philosopher of
medicine who also served as the dean of the medical schools at the
New York University and Yale was asked to select seven wonders of
the modern world Olfaction (olfactory receptor cell) was fifth in his
list How does the modern fifth wonder that brings us the smell of our
surroundings ndash the good and bad work
The process of making sense of smell start by binding the odor
molecules to the olfactory receptors located in the olfactory sensory
neurons (OSNs) in the nose This binding triggers a series of signal
amplification steps which lead to electrical spikes (so called action
potentials) in OSNs This olfactory information whose intensity is
encoded by varying the number of action potentials is then passed
onto the projection neurons named mitral and tufted cells in the
olfactory bulb These projection neurons whose excitatory actions
are controlled by various inhibitory neurons carry the olfactory
information to the higher centers in the brain so that we perceive the
smell of spicy tasty food and putrid garbage ndash the good and bad
from the environment
Continued
9
Brain waves
measured by EEG
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
What is really happening inside the brain of a Schizophrenia
patient Does it look any different from a normal brain
DR VENKATASUBRAMANIAN GANESAN NIMHANS Bengaluru
Intermediate Fellow
The brain of a schizophrenia patient is reduced in overall volume
with increase in the size of the ventricles (parts of the brain that
contain cerebrospinal fluid) however certain parts like hippocampus
superior temporal gyrus and prefrontal cortex are more affected
than others Using certain advanced brain imaging research studies
(for example high resolution structural MRI functional MRI Magnetic
Resonance Spectroscopy Positron Emission Tomography and Diffusion
Tensor Imaging and similar others) subtle brain abnormalities in
structure function neurochemical profile as well as brain connectivity
have been demonstrated in several brain regions in schizophrenia
patients It is important to note that these findings are obtained
from advanced research studies that have compared brains of a
Why are the mirror neurons called the Minds mirror What do
they reflect
DR URVAKHSH MEHTA National Institute of Mental Health amp
Neurosciences (NIMHANS) Bengaluru
Early Career Fellow
Mirror neurons are specialized nerve cells that discharge when
we perform actions as well as when we observe others perform the
same action Rizzolatti and colleagues accidentally discovered them
in monkeys These neurons also get vicariously activated when we
perceive emotional states of others This unique bdquoexperience sharing‟
property of mirror neurons perhaps enables us to decipher goals
intentions and emotions of others
In several of our daily social interactions we need to take
perspectives of others decipher deception share feelings and
empathize with others The mirror neuron system is an important
brain network that helps us peek into the minds of others and try to
understand people They translate sensory information (eg
observation of an action) into a motor template which is similar to
the format an observer himself uses to perform that very action This
motor template can help us interpret the goals and feelings
underlying observed actions The definitive demonstration of mirror
neurons in humans was as recent as 2010 There is also growing
evidence of a dysfunctional mirror neuron system in psychiatric
disorders like autism and schizophrenia It is a long and exciting
future ahead to decipher spatiotemporal regulatory and genetic
underpinnings of this unique neuronal network ndash this will possibly
help understand and treat social brain disorders better
Schizophrenia
What happens if we loose our sense of smell Loss of olfaction can
be caused by many reasons ranging from viral infections to
neurodegenerative disorders As our emotions and memories are
strongly related to olfaction the loss of this sense can lead to
depressed state and even affect bonding with family members Just
imagine sipping from your morning coffee without sensing it‟s aroma
- our taste could be badly affected by losing sense of smell The
ongoing research at the nasal stem cell level might provide clinical
solutions for the disorders of the olfactory sensory neurons to regain
this wonderful sense
group of schizophrenia patients with that of healthy subjects thus
these are group averaged findings that are currently not applicable
for diagnosing schizophrenia in an individual patient in a regular
clinical setting In ldquoa specific patientrdquo one may not be able to find
any striking abnormality in the physical appearance of the brain (ie
a routine CT or MRI brain scan may not be able to identify any
obvious aberration) Several ongoing research studies are in pursuit
to identify clinically useful biomarker to diagnose schizophrenia
Find out more about Dr Ganesan‟s research on schizophrenia here
Do you have a burning scientific
question
Send them to
publicengagementwellcomedbtorg
Mirror neuron activity in the brain both when the monkey grasps an object
and when it observes the experimenter grasping the object Mirror neurons
were first discovered by Rizzolatti and colleagues when they were studying
motor actions in macque monkeys
10
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
Eligibility
Eligibility limit covers the entire range of Clinical and Public
Health Research Fellowship schemes
bull No age or Nationality restrictions
bull The candidates need not be resident in India while
applying but should be willing to establish an
independent research career in India
bull Clinicians and Public health researchers do not require a
PhD to apply
bull This competition is open for clinicians and public health
researchers with up to 15 years of post-
MDMSMPHPhD or equivalent clinical public health
research experience
bull The Applicants are advised to choose the most
appropriate scheme suitable for them based on their
qualification research experience career trajectory and
track record Please refer to the guidance notes
provisions and mandate of the scheme for assessing your
eligibility on the website The Office reserves the right to
advice on the suitability of the scheme accordingly
Early Career Fellowship This scheme provides a unique
opportunity for those who have shown promise to pursue
research and wish to further their efforts to build a research
career under the supervision of a Fellowship
supervisor Guidance note Suitable for applicants in the final
year PhDMDMSMPH or have up to 4 years of relevant
experience
Intermediate Fellowship For those who have been
successful in building a track record of pursuing a cutting
edge research and wish to establish their own independent
clinicalpublic health research program in India Guidance
note Suitable for applicants with 4-7 years of relevant
experience
INDIA ALLIANCE FELLOWSHIP ANNOUNCEMENT
CALL FOR APPLICATIONS
Application forms are available on the India Alliance online
application System (IASys) at
httpsfellowshipswellcomedbtorgLoginaspx
Please visit our website for further information on the application process Please write to us with
queries to infowellcomedbtorg
3
CLINICAL AND PUBLIC HEALTH RESEARCH FELLOWSHIPS 2016
Preliminary Application Deadline 1 March 2016
India Alliance invites applications for three Fellowship schemes
Early Career Fellowships Intermediate Fellowships and Senior Fellowships
Senior Fellowship For those who have demonstrated their
potential to lead an independent research program and
want to expand it further to undertake pioneering research
Guidance note Suitable for applicants with 7-15 years of
relevant experience
Remit Full spectrum of biomedical science involving clinical
and public health research
Provisions
bull These Fellowships would encourage interested clinicians
to pursue their research goals in combination with their
clinical duties
bull Competitive personal support
bull Generous research support with flexibility to
accommodate requirements of clinical and public health
research
bull Flexibility to request additional support staff
bull Support training cost and research sabbatical
bull Funds for International training and travel
bull Opportunity to pursue a PhD on the India Alliance
funded research
Essentials on the application
bull A research proposal that seeks to answer an original
biomedical research question
bull A not-for-profit Host Institution in India that will
administer the Fellowship for the full duration of the
award A salaried position or commitment to a salaried
position at the Host Institution is not required
bull A Sponsor at the Host Institution who can guarantee
space and resources for the duration of the award
bull In case of an Early Career Fellowship a Fellowship
Supervisor who can guarantee access to laboratory
space and resources required for the project as well as
provide relevant scientific guidance for the tenure of the
Fellowship
CLINICAL AND PUBLIC HEALTH RESEARCH FELLOWSHIPS
Early Career Fellowships
Dr Jayanth Kumar Palanichamy All India Institute of Medical Sciences New Delhi
Dr Aparna Mukherjee All India Institute of Medical Sciences New Delhi
Dr Deepak Kamath St Johns National Academy Of Health Sciences Bangalore
Intermediate Fellowships
Dr Aparna Rao L V Prasad Eye Institute Bhubaneswar
Dr Abi Vanak Ashoka Trust for Research in Ecology and the Environment Bangalore
Dr Shivarama VaramballyNational Institute of Mental Health and Neurosciences Bangalore
Dr Rashmi Rodrigues St Johns National Academy Of Health Sciences Bangalore
Dr Mahesh Kate Christian Medical College Ludhiana
Research Training Fellowships
Ms Urvita Bhatia Sangath Porvorim
Dr Deepak Gautam All India Institute of Medical Sciences New Delhi
Dr Sumsum P Sunny Mazumdar Shaw Medical Center Bangalore
Dr Dhruva Ithal National Institute of Mental Health and Neurosciences Bangalore
Dr Rakshathi B National Institute of Mental Health and Neurosciences Bangalore
ANNOUNCEMENT
RECENTLY RECOMMENDED AWARDEES
BASIC RESEARCH FELLOWSHIPS
Intermediate Fellowships
Dr Sridharan Devarajan Indian Institute of Science Bangalore
Dr Nitin Gupta Indian Institute Of Technology Kanpur
Dr Sachin Kotak Indian Institute of Science Bangalore
Dr Aravind Penmatsa Indian Institute of Science Bangalore
Dr Siddhesh Shashikant Kamat Indian Institute of Science Education and Research Pune
Dr Mohan Joshi Centre for DNA Fingerprinting and Diagnostics Hyderabad
Dr Satish Khurana Indian Institute of Science Education and Research Thiruvananthapuram
Dr Pinky Kain Indian Institute of Technology Roorkee
Dr Santosh Chauhan Institute Of Life Sciences Bhubaneswar
India Alliance announced Fellowship Awardees of the Clinical and Public Health Research Fellowship
scheme and Intermediate Fellowship under the Basic Biomedical Research competition in December 2015
The interviews for these Fellowship schemes were held in November 2015
indicates institution that before this award did not have any India Alliance Fellow
4
MARGADARSHI FELLOWSHIP
Prof Satyajit Mayor National Centre for Biological Science Bangalore
IN CONVERSATION WITH
Dr Aravinda Chakravarti
Dr Aravinda Chakravarti is a Professor of Medicine Pediatrics Molecular Biology amp Genetics and Biostatistics and Director Center
for Complex Disease Genomics at the Johns Hopkins University School of Medicine and the Bloomberg School of Public Health He
also has a long association with the India Alliance as a member of its Clinical and Public Health Research Fellowship committee
What motivated you to become a scientist
I cannot say that it was any one person or one event or any one
point of time that led me to consider doing science Nor did I know
what being a scientist would entail or how one prepared to become
one I was not interested in science nor good at it or anything else for
that matter before the 9th grade But subsequently it was the
concreteness and logic of mathematics and the sciences that
appealed to me I also began reading material outside my textbooks
such as books in the Nuffield Science Series and others I came across
in the Calcutta British Council Library which began giving me a
broader look at the world of science But I was still clueless This was
evident in my applying for almost every conceivable program for
college (Engineering Medicine Geology Agriculture Physics and
Statistics) and being selected but not necessarily into the best schools
or programs Thus bdquosuccess‟ did not clarify my thinking any one bit
Finally I did choose to attend the Indian Statistical Institute (ISI)
outside Calcuttahellipa then beautiful oasis of calm in the politically
turbulent Calcutta of 1970‟s when being young well-read and aware
were enough to raise suspicions in the Calcutta Police (For those who
doubt the serious and mortal danger all young people in Calcutta
were under during this time read the daily newspaper reports from
the 70‟s)
For me Indian Statistical Institute (ISI) was
an escape from reality and an entry into a
synthetic artificial and manufactured world
of quantitative ideas
Our courses over 4 years in a US-style undergraduate were 50
Mathematics and Statistics and 50 an assortment of sciences and
economics (to learn the various domains in which quantitative
reasoning would be critical) where we were taught to ask bdquowhy‟ not
only bdquohow‟ something worked For the first time I found myself in an
atmosphere where understanding mattered more than knowledge
(dont worry knowledge did matter greatly) the pursuit of a job was
a side issue and we were encouraged to discover any area we
wished (or thats how I felt) I also had passionate teachers who were
the very best in the world For the first time I felt liberated learning
was fun and pursuing science as a life seemed like the only natural
thing to do It wasnt a one day transformationhellipby the time I left ISI I
knew that I could ask and answer at least some questions ISI was the
institution where the famed British polymath and geneticist J B S
Haldane came to in 1957 and became one of the architects of my
undergraduate program Although Haldane died in 1964 his ghost
was still around when I was a student at the ISI That I would do
genetics and be a scientist particularly in human genetics was
therefore a no brainer
Could you briefly take us through your scientific journey and
about your interest in genetics
My interest in genetics was established at the ISI but no less fueled by
my reading of Jim Watson‟s The Double Helix in 1970 and then as
credited by Watson and Crick Erwin Schrodinger‟s What is Life As a
student of the quantitative sciences at ISI the part of genetics that
appealed to me (simply because I could digest it) was Population
Genetics Also ISI had a Department of Human Genetics that
performed numerous studies of human genetic molecular diversity
across populations in India So my early training was in studies of
human population diversity Nevertheless Haldane‟s research (that I
was increasingly becoming aware of) was equally in family studies
that exemplified mechanisms not evident in population studies So as
a student I conducted and published research into the inheritance of
simply observable traits (bdquohand clasping‟ or the phenotype where you
classify individuals by whether they fold their left thumb over their
right or vice versahelliptry it only one way feels correct) just to learn
genetics and to attempt to combine the family and the population
methods that are so common today Fortunately by this time I had left
myself few opportunities to be interested in doing anything else but
human genetics
5
IN CONVERSATION WITH Dr Aravinda Chakravarti
Being rejected by several programs to study genetics in India
(because I was not a biology undergraduate) I chose to do graduate
work with the noted geneticist and molecular evolutionist Masatoshi
Nei at the University of Texas Houston where he had just moved I
arrived in Houston in 1974 and was immediately thrust into a small
intense center with brilliant people and expected to perform research
at a level I was surely unaccustomed to This group was the epicenter
of the then neutralist-selectionist debate in molecular evolution a
problem that was exciting but not my cup of tea I wanted to study
human genetics and finally fashioned a research project with Nei that
explored the theoretical consequences of improved genetic counseling
with linkage and association (linkage disequilibrium) markers and
graduated with a PhD in 1979 This research was not only far ahead
of its time coming before the proposal of creating a human linkage
map using RFLPs (restriction fragment length polymorphism) in 1980
but I was the only Nei student who worked outside molecular
evolution In many ways then my development in genetics became
very broad and haphazard since I often focused on areas that were
not my primary training grounds
By this time I was a geneticist but thought I needed further training in
genetic epidemiology to understand human disease better However
after an unsuccessful postdoc at Seattle I abandoned this idea to
take a non-tenured teaching position at the University of Pittsburgh
thinking that the bdquofree‟ time I would have would allow me to catch up
on the revolution in recombinant DNA technology that was underway I
am glad I did since this was one of the best
professional decisions I made by forgoing
the standard path
I taught at Pittsburgh for 5 years and subsequently obtained an NIH
Research Career Development Award to pursue a research career
That began my standard research career in human genetics
What according to you are the challenges in your field of
research
The field of human genetics is not the one I trained in since so much
has changed with the sequencing of the human genome Human
genetics has two distinct themes one descriptive as to the causes of
human variation be it molecular or phenotypic (the bdquohow‟ question)
and a second mechanistic as to how variation in molecular
mechanisms impact phenotype variation particularly disease (the
bdquowhy‟ question) The whole attraction of the human genome project to
me and others like me who spent more than a decade on building the
now available community resources (maps clones sequences variants
transcripts etc) was to move from the first set to the second set of
questions This transformation is difficult since it is not in the comfort
zone of conventional human genetics its hard and unpredictable
much more hypothesis-driven and much more experimental The
challenge in my field and in many associated medical specialties is
that it‟s far easier to do the first then the second Scientists are voting
with their feet Human geneticists are far more content in sequencing
human genomes finding associations with disease and doing facile
functional annotation than a serious investigation into why does this
gene causes type 2 diabetes and the next one congenital cataract
Or why mutations in the same gene cause a neuroendocrine tumor
when activating but congenital aganglionosis when loss-of-function
Or how come the same mutation can act as either activating or loss-
of-function
The biggest challenge in my field is to
overcome the inertia that molecular
description = etiological explanation
If you were not a scientist you would behellip
I really have no idea I presume the Bengali in me implicitly wants
or always wanted to be a writer but that would be a great leap of
faith and quite arrogant Even good scientific writing is hard very
hard indeed I have often read someone else‟s paper that I enjoyed
and thought that I could have done the same work a similar thought
has not appeared after reading someone else‟s creative work except
when it is quite bad
5 What is the best advice you have ever received
Unfortunately most advice that most people get and give is bad
More correctly its difficult to know (what‟s the test) when it is good
and when bad Each of us likely adapt a post-hoc explanation to our
stories all of which are likely revisionist Nevertheless two different
people (a brother and a family friend) at about the same time
(1979-1982) told me to abandon what I was doing (an unsuccessful
postdoc and forcing myself to complete reading a fairly racist
account of the Black Hole of Calcutta) because it was beyond my
enjoyment They both suggested that I drop it and do something else
One should not shoulder a burden that is great unless some higher
purpose is at stake One needs to learn how to apportion risk with
benefit
Your message for young students and researchers
Science is difficult but exhilarating in its rare moments of success
and it‟s usually followed by long periods of stasis It is a great but
frustrating life and there are many worse ways of making a living It
is like other types of creative endeavors where discovery is real but
rare If you wish to do it be sure you can enjoy its moods Science
today is also multidisciplinary and translational its application to
humans and other benefits can also be tangible sources of pride But
do it not for these benefits do it because the science gives you great
joy Yes joy Consider that you are one in an
unbroken intellectual chain from Johannes
Kepler and Isaac Newton If you choose
science you are special
Dr Chakravarti‟s laboratory focuses on the development and
applications of molecular genetic genomic and computational
methods for identification of human disease genes through
genetic dissectionldquo He has been a key participant and architect
of the Human Genome HapMap and 1000 Genomes project Find
out more about his research here
6
Workshop at a glance One-day workshop to equip young science
researchers with tools and strategies for effective communication of
their ideas experiments and scientific results from a science
communication perspective Help them to make science career choices
Vision Science communication plays an integral role in one‟s scientific
career Being able to effectively disseminate research findings within
the community and to consider collective opinions in prioritising
research needs is an important attribute of scientific maturity In
keeping with its mandate to empower future leaders of Indian science
the Wellcome TrustDBT India Alliance periodically conducts one-day
(SciComm101) and two-day (SciComm Hyderabad) science
communication workshops for the past four years This complements
seamlessly with Nature India‟s mandate to showcase India‟s science bdquoas
it happens‟ in laboratories and institutions across the country through
in-depth coverage and analysis of research and science policy The
proposed workshop would be part of Nature India‟s many
communication outreach activities as the one-stop media platform for
India‟s science
The Wellcome TrustDBT India Alliance and Nature India both
represent possibilities for young PhD scholars and postdoctoral
scientists to transition into academic as well as non-academic science
careers Information and advice on how to explore various career
options will form an important part of these workshops with
Naturejobs as the key organiser of the career session
Structure amp format
The workshop will be a one-day event preceding a biomedical (or
scientific) conference organised by reputed science
societiesorganisationsinstitutes and Universities in India A large
participation by PhD students postdoctoral fellows and junior
scientists will be a pre-requisite for holding this workshop Organising
this workshop as part of a conference will ensure participation from a
wide range of institutions across India The workshop will include 3
separate sessions
Session 1 Scientific Writing (moderated by WTDBT Alliance)
Topics to be covered
bull Ethics in research
bull Presentation skills
bull Manuscript writing
bull Grants writing
bull CVs and letters
Session 2 Science Communication (moderated by Nature India)
Topics to be covered
bull Science journalism
bull Popular science writing
bull Effective press releases
bull Hands-on skills on dejargonising science
Session 3 Alternate Science Career (moderated by Nature Jobs)
Topics to be covered
bull Career in the Industry
bull Career in Science PromotionIntellectual Property
bull Career in PolicyGrant organizations Journalism
Science Communication and Career Workshop Series (In partnership with Nature India amp Naturejobs )
Please contact us at workshopswellcomedbtorg to find out more about this series
INDIA ALLIANCE
SCIENCE COMMUNICATION
SciComm101 workshop
10 March 2016 MSU Baroda
Two-day SciComm workshop
21-22 March 2016 Hyderabad Applications under review
For more details visit SciComm Workshop under Quick Links on our website
Upcoming Workshops
5
ABOUT THE ART amp SCIENCE PROJECT
CALL FOR APPLICATIONS THE UNDIVIDED MIND |ART +
SCIENCE RESIDENCY AT KHOJ
Residency Dates March 2nd ndash April 2nd 2015
Application Deadline February 2nd 2015
Proposals are invited for bdquoThe Undivided Mind‟ a four-week
international residency for artists whose work explores the
intersection of art and science
At first it may seem that the pairing of Art amp Science is an atypical
choice as the two fields and methods of practice have almost
universally been represented as diametric opposites of each other
However on closer examination the similarities between artists and
scientists far outweigh their stereotypical differences Both are
dedicated to research and to asking the big question- what is true
Why does it matter How can we move society forward Moreover
both the lab and the studio are spaces that famously encourage
open-ended enquiry and emphasis on process In tune with Khoj‟s
commitment to cultivate an environment that allows for
experimentation and innovation the Art amp Science residency will be
a step towards furthering the explorations of interdisciplinary
practitioners This is the second edition of a Khoj residency focusing
on Art + Science to know more about the first edition please
click bdquohere‟
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
The following India Alliance Fellows will be participating in the
project
(NOTE If an applicant wishes to connect with any of the following
researchers in advance of submitting their proposal please contact
the Khoj team at bdquoapplicationskhojworkshoporg‟ for an
introduction please do the same if you are a scientist and would like
take part in this project )
Dr Venkatasubramanian Ganesan National Institute of Mental
Health and Neurosciences (NIMHANS) Bangalore
Dr Pallab K Maulik The George Institute for Global Health New
Delhi
Dr Anurag Agarwal CSIR-Institute of Genomics amp Integrative
Biology (IGIB) New Delhi
Dr Tavpritesh Sethi All India Institute of Medical Sciences (AIIMS)
New Delhi
Dr Lolitika Mandal Indian Institute of Science Education and
Research (IISER) Mohali
Dr Urvakhsh MehtaNIMHANS Bangalore
Dr Sheetal Gandotra IGIB New Delhi
Visit Khoj website to find out more about the residency and the application process
Apply by
2 February 2016
India Alliance is pleased to announce its support for Art amp Science Project at Khoj International Artists Association New Delhi details of
which can be found below and on the Khoj website It promises to be a great platform for interdisciplinary dialogue and exchange
between scientists and artists and we encourage anyone interested to apply (artists) and get involved (scientists)
THEME
The theme of the 2016 edition of The Undivided Mind is bdquoHealth‟
Within this broader framework three curatorial frameworks or
modes for exploration are suggested Terrestrial Health refers to
that which is on or related to the earth This sub ndash theme suggests an
investigation into the physical health and structure of the body (both
human and animal) the environment the community and the
interrelations between these spheres Mental Health refers to that
which is of or relating to the mind This sub ndash theme focuses on a
psychological investigation of what constitutes Health of the mind
and raises questions about the bdquosocially‟ defined state of well-being
where issues‟ surrounding the legal rights and entitlement of
personhood for those living with a mental disorder is open for
debate Finally Extraterrestrial Health may refer to any object
being or idea beyond the planet Earth This sub ndash theme opens up a
space where the relationship between Earth and other planetary
bodies can be studied What does it mean for human existence when
sending human life forms to Mars is projected to take place by
2020 What are the long term effects and solution to space debris
if life projects out beyond Earth This sub ndash theme also invites
applicants to consider the abstract and metaphorical imaginings of
health in contemporary and future societies
6
Nobel Laureate Dr Harold Varmus recognized for his research on
retroviruses and the genetic basis of cancer gave a lecture on ldquoRecent
Developments in Cancer Researchrdquo at National Institute of Immunology
(NII) New Delhi an event co-organised by NII Wellcome TrustDBT
India Alliance and Department of Biotechnology Government of
India His lecture largely gave an overview of the recent
developments challenges and the future directions in the field of
cancer research which included the current research of his group in
this area
Dr Varmus who had spent time in Bareilly as a young medical
student described cancer as a complex disease that requires
innovative research and treatment strategies At the outset Dr Varmus
introduced the key questions that drive the cancer research field- Is
cancer one disease or many diseases What makes the cancer cell
grow so stably in such an inappropriate manner How does a normal
cell become a cancer cell Providing answers to these questions
formed the backdrop of Dr Varmus‟s lecture which drew from his
research work till date and other advances in the field
Dr Varmus entered the field of cancer research in 1970s as a
postdoctoral scientist in the laboratory of Dr John J Michael Bishop at
University of California San Francisco USA the same year National
Cancer Act was signed in the country Dr Bishop and Dr Varmus
together received the Nobel Prize in Medicine and Physiology in
1989 ldquofor their discovery of the cellular origins of retroviral
oncogenesrdquo During his lecture Dr Varmus confessed standing on the
shoulders of giants of retroviral and cancer research such as Dr
Peyton Rous Dr Harry Rubin and Dr Howard Temin to ask the question
of how retroviruses transformed cells and cause tumours This question
led him to look for genes that make a normal cell behave like a
cancer cell which initially involved studying cancer-causing RNA
virusesretroviruses in animals The retrovirus that played a lead role
in Dr Varmus and his colleague‟s work was the Rous Sarcoma Virus
(RSV) discovered by Dr Peyton Rous in 1911 which he showed caused
a type of cancer in chickens Dr Varmus and colleagues set out to
prove the hypothesis that retroviruses enter host cells and capture
normal genes in that cell by inserting their DNA converting them into
cancer-causing genes or oncogenes Dr Varmus and his group
employed various cellular chemical as well as genetic tools to
establish that retroviruses can indeed act as mutagens by inserting
their DNA in host cells and turning them into cancer cells After this his
group went on to identify the cancer-causing genes present in the
virus and subsequently discovered many new oncogenes v-Src (a
gene of RSV) being the first one Following these discoveries and
subsequently many others led to the belief that the genetic basis of
cancer is highly heterogeneous Dr Varmus told us that in order to
catalogue these complexities the Cancer Genome Atlas was
established in 2005 which till today serves as a collection of the
genetic mutations responsible for different cancers
Apart from the complexity and vastness of the cancer genome
other challenges in the field according to Dr Varmus are genetic
heterogeneity and evolution of tumours due to various environmental
factors such as exposure to UV pollution tobacco use and other
environmental carcinogens that are on the rise He used the example
of renal tumor evolution which illustrates Darwin‟s theory of ldquoevolution
of speciesrdquo to show that this rapidly changing genetic repertoire can
have significant impact on diagnosis therapeutic interventions and
prognosis Another issue of concern highlighted by Dr Varmus was the
absence of suitable drugs against many common targets for cancer
such as cancer-causing RAS genes and many transcription factors
which have been shown to contribute towards cancer formation Dr
Varmus opined that lack of understanding of the underlying
complexity of resistance to cancer therapies is another roadblock in
cancer treatment He was also strongly of the opinion that there are
not enough public health interventions to prevent cancer- this he felt
needs to go hand in hand with finding cure for cancer
Dr Varmus also offered solutions to these problems He suggested
that research needs to ldquolook beyond genes and focus on patterns and
pathwaysrdquo and physiological changes taking place in cancer cells He
shared his group‟s current interest in studying ldquooncogene addictionrdquo
which is based on the premise that some oncogenes not only give rise
to cancer but also maintain the cancerous state of the cells
Interpreting the downstream effects of these cancer genes on the
pathways could be employed as a strategy to attack multiple targets
by drugs in different cancers Even though he hailed the successes of
many commonly used and extremely efficacious anti-cancer drugs
such as Gleevec Gefitinib Erlotinib but in light of growing
complexity of the disease proposed the need for adopting more
innovative drug discovery and treatment approaches Continuing on
the topic of therapeutics Dr Varmus mentioned the recent advances in
immunotherapeutic approaches to treat cancer which would require
us to understand why the otherwise combative immune system does
not kill cancer cells He suggested that gaining understanding of these
immune check points and accordingly targeting them by antibody
inhibitors could serve as one more effective treatment strategy-
another project his research group has undertaken In addition to
these therapeutic approaches Dr Varmus very strongly asserted that
ldquonot everything we talk about cancer should be about cancer therapy
but also about preventionrdquo and that this disease ought to be on the
global health agenda
Dr Varmus very eloquently concluded his talk by stating that
ldquoconfronting cancer needs a balance between grasping its complexity
and seeking simple solutionsrdquo As expected he received many
questions from the audience after his lecture on the genetics and
biology of various cancers potential use of vaccines in cancer
treatment crosstalk of cancer with other diseases and many others to
which he responded with prudence and an underlying sense of
optimism
Prior to his lecture Dr Varmus over an hour meeting with 10 young
cancer researchers discussed their work This group included the
following Wellcome TrustDBT India Alliance Fellows - Dr Reety Arora
(ECF InStem Bangalore) Dr Anjali Bajpai (ECF IIT Kanpur) Dr
Bushra Ateeq (Int Fellow IIT Kanpur) Dr Kundan Sengupta (Int Fellow
IISER Pune) and Dr Sandeep Singh (Int Fellow NIBMG Kalyani) Dr
Varmus also sought information on the India Alliance Fellowships and
was impressed by its funding model and reach
LECTURE REPORT
Recent Developments in Cancer Research By Dr Harold Varmus Nobel Prize in Medicine and Physiology Weill Cornell Medical College USA
at
National Institute of Immunology New Delhi
16 November 2015
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
7
ASK THE SCIENTIST about
The Human Brain
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
This section will bring to you answers to those burning scientific questions that you always wanted to ask the guys in the white
coat For this issue we asked some of our Fellows to shed light on the various operations of the brain
How can we measure attention
DR SUPRATIM RAY Indian Institute of Science Bangalore
Intermediate Fellow
Attention can be of different types such as sustained (vigilance)
selective (focusing at one stimulus in the presence of distractors) or
alternating (involves switching) which can be measured using a
variety of cognitive tests (such as test of everyday attention (TEA) or
Posner cuing task) For example in a classical Posner task a subject
is repeatedly shown two stimuli and cued to attend to one of them
and instructed to respond to a change in the stimulus (say by
pressing a button) The cue could be valid (change occurs at the cued
stimulus say for 80 of the trials) invalid (change occurs at the
uncued stimulus) or neutral (ambiguous) Selection attention can be
measured by comparing the accuracy and the time taken to press
the button after stimulus change (called reaction time) for different
cue types
Different components of attention such as orienting towards a
location detecting a target or maintaining vigilance are carried out
by distinct brain areas in the prefrontal and parietal lobes and some
sub-cortical structures (such as superior colliculus) Overall
performance depends not only on how these areas perform but also
how they communicate with each other and on the levels of
neuromodulators such as norepinephrine
How can we sense smell Is it possible to live without this
sense of smell
DR NIXON ABRAHAM Indian Institutes of Science Education amp
Research (IISER) Pune
Intermediate Fellow
Once Dr Lewis Thomas (1913-1993) the poet and a philosopher of
medicine who also served as the dean of the medical schools at the
New York University and Yale was asked to select seven wonders of
the modern world Olfaction (olfactory receptor cell) was fifth in his
list How does the modern fifth wonder that brings us the smell of our
surroundings ndash the good and bad work
The process of making sense of smell start by binding the odor
molecules to the olfactory receptors located in the olfactory sensory
neurons (OSNs) in the nose This binding triggers a series of signal
amplification steps which lead to electrical spikes (so called action
potentials) in OSNs This olfactory information whose intensity is
encoded by varying the number of action potentials is then passed
onto the projection neurons named mitral and tufted cells in the
olfactory bulb These projection neurons whose excitatory actions
are controlled by various inhibitory neurons carry the olfactory
information to the higher centers in the brain so that we perceive the
smell of spicy tasty food and putrid garbage ndash the good and bad
from the environment
Continued
9
Brain waves
measured by EEG
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
What is really happening inside the brain of a Schizophrenia
patient Does it look any different from a normal brain
DR VENKATASUBRAMANIAN GANESAN NIMHANS Bengaluru
Intermediate Fellow
The brain of a schizophrenia patient is reduced in overall volume
with increase in the size of the ventricles (parts of the brain that
contain cerebrospinal fluid) however certain parts like hippocampus
superior temporal gyrus and prefrontal cortex are more affected
than others Using certain advanced brain imaging research studies
(for example high resolution structural MRI functional MRI Magnetic
Resonance Spectroscopy Positron Emission Tomography and Diffusion
Tensor Imaging and similar others) subtle brain abnormalities in
structure function neurochemical profile as well as brain connectivity
have been demonstrated in several brain regions in schizophrenia
patients It is important to note that these findings are obtained
from advanced research studies that have compared brains of a
Why are the mirror neurons called the Minds mirror What do
they reflect
DR URVAKHSH MEHTA National Institute of Mental Health amp
Neurosciences (NIMHANS) Bengaluru
Early Career Fellow
Mirror neurons are specialized nerve cells that discharge when
we perform actions as well as when we observe others perform the
same action Rizzolatti and colleagues accidentally discovered them
in monkeys These neurons also get vicariously activated when we
perceive emotional states of others This unique bdquoexperience sharing‟
property of mirror neurons perhaps enables us to decipher goals
intentions and emotions of others
In several of our daily social interactions we need to take
perspectives of others decipher deception share feelings and
empathize with others The mirror neuron system is an important
brain network that helps us peek into the minds of others and try to
understand people They translate sensory information (eg
observation of an action) into a motor template which is similar to
the format an observer himself uses to perform that very action This
motor template can help us interpret the goals and feelings
underlying observed actions The definitive demonstration of mirror
neurons in humans was as recent as 2010 There is also growing
evidence of a dysfunctional mirror neuron system in psychiatric
disorders like autism and schizophrenia It is a long and exciting
future ahead to decipher spatiotemporal regulatory and genetic
underpinnings of this unique neuronal network ndash this will possibly
help understand and treat social brain disorders better
Schizophrenia
What happens if we loose our sense of smell Loss of olfaction can
be caused by many reasons ranging from viral infections to
neurodegenerative disorders As our emotions and memories are
strongly related to olfaction the loss of this sense can lead to
depressed state and even affect bonding with family members Just
imagine sipping from your morning coffee without sensing it‟s aroma
- our taste could be badly affected by losing sense of smell The
ongoing research at the nasal stem cell level might provide clinical
solutions for the disorders of the olfactory sensory neurons to regain
this wonderful sense
group of schizophrenia patients with that of healthy subjects thus
these are group averaged findings that are currently not applicable
for diagnosing schizophrenia in an individual patient in a regular
clinical setting In ldquoa specific patientrdquo one may not be able to find
any striking abnormality in the physical appearance of the brain (ie
a routine CT or MRI brain scan may not be able to identify any
obvious aberration) Several ongoing research studies are in pursuit
to identify clinically useful biomarker to diagnose schizophrenia
Find out more about Dr Ganesan‟s research on schizophrenia here
Do you have a burning scientific
question
Send them to
publicengagementwellcomedbtorg
Mirror neuron activity in the brain both when the monkey grasps an object
and when it observes the experimenter grasping the object Mirror neurons
were first discovered by Rizzolatti and colleagues when they were studying
motor actions in macque monkeys
10
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
CLINICAL AND PUBLIC HEALTH RESEARCH FELLOWSHIPS
Early Career Fellowships
Dr Jayanth Kumar Palanichamy All India Institute of Medical Sciences New Delhi
Dr Aparna Mukherjee All India Institute of Medical Sciences New Delhi
Dr Deepak Kamath St Johns National Academy Of Health Sciences Bangalore
Intermediate Fellowships
Dr Aparna Rao L V Prasad Eye Institute Bhubaneswar
Dr Abi Vanak Ashoka Trust for Research in Ecology and the Environment Bangalore
Dr Shivarama VaramballyNational Institute of Mental Health and Neurosciences Bangalore
Dr Rashmi Rodrigues St Johns National Academy Of Health Sciences Bangalore
Dr Mahesh Kate Christian Medical College Ludhiana
Research Training Fellowships
Ms Urvita Bhatia Sangath Porvorim
Dr Deepak Gautam All India Institute of Medical Sciences New Delhi
Dr Sumsum P Sunny Mazumdar Shaw Medical Center Bangalore
Dr Dhruva Ithal National Institute of Mental Health and Neurosciences Bangalore
Dr Rakshathi B National Institute of Mental Health and Neurosciences Bangalore
ANNOUNCEMENT
RECENTLY RECOMMENDED AWARDEES
BASIC RESEARCH FELLOWSHIPS
Intermediate Fellowships
Dr Sridharan Devarajan Indian Institute of Science Bangalore
Dr Nitin Gupta Indian Institute Of Technology Kanpur
Dr Sachin Kotak Indian Institute of Science Bangalore
Dr Aravind Penmatsa Indian Institute of Science Bangalore
Dr Siddhesh Shashikant Kamat Indian Institute of Science Education and Research Pune
Dr Mohan Joshi Centre for DNA Fingerprinting and Diagnostics Hyderabad
Dr Satish Khurana Indian Institute of Science Education and Research Thiruvananthapuram
Dr Pinky Kain Indian Institute of Technology Roorkee
Dr Santosh Chauhan Institute Of Life Sciences Bhubaneswar
India Alliance announced Fellowship Awardees of the Clinical and Public Health Research Fellowship
scheme and Intermediate Fellowship under the Basic Biomedical Research competition in December 2015
The interviews for these Fellowship schemes were held in November 2015
indicates institution that before this award did not have any India Alliance Fellow
4
MARGADARSHI FELLOWSHIP
Prof Satyajit Mayor National Centre for Biological Science Bangalore
IN CONVERSATION WITH
Dr Aravinda Chakravarti
Dr Aravinda Chakravarti is a Professor of Medicine Pediatrics Molecular Biology amp Genetics and Biostatistics and Director Center
for Complex Disease Genomics at the Johns Hopkins University School of Medicine and the Bloomberg School of Public Health He
also has a long association with the India Alliance as a member of its Clinical and Public Health Research Fellowship committee
What motivated you to become a scientist
I cannot say that it was any one person or one event or any one
point of time that led me to consider doing science Nor did I know
what being a scientist would entail or how one prepared to become
one I was not interested in science nor good at it or anything else for
that matter before the 9th grade But subsequently it was the
concreteness and logic of mathematics and the sciences that
appealed to me I also began reading material outside my textbooks
such as books in the Nuffield Science Series and others I came across
in the Calcutta British Council Library which began giving me a
broader look at the world of science But I was still clueless This was
evident in my applying for almost every conceivable program for
college (Engineering Medicine Geology Agriculture Physics and
Statistics) and being selected but not necessarily into the best schools
or programs Thus bdquosuccess‟ did not clarify my thinking any one bit
Finally I did choose to attend the Indian Statistical Institute (ISI)
outside Calcuttahellipa then beautiful oasis of calm in the politically
turbulent Calcutta of 1970‟s when being young well-read and aware
were enough to raise suspicions in the Calcutta Police (For those who
doubt the serious and mortal danger all young people in Calcutta
were under during this time read the daily newspaper reports from
the 70‟s)
For me Indian Statistical Institute (ISI) was
an escape from reality and an entry into a
synthetic artificial and manufactured world
of quantitative ideas
Our courses over 4 years in a US-style undergraduate were 50
Mathematics and Statistics and 50 an assortment of sciences and
economics (to learn the various domains in which quantitative
reasoning would be critical) where we were taught to ask bdquowhy‟ not
only bdquohow‟ something worked For the first time I found myself in an
atmosphere where understanding mattered more than knowledge
(dont worry knowledge did matter greatly) the pursuit of a job was
a side issue and we were encouraged to discover any area we
wished (or thats how I felt) I also had passionate teachers who were
the very best in the world For the first time I felt liberated learning
was fun and pursuing science as a life seemed like the only natural
thing to do It wasnt a one day transformationhellipby the time I left ISI I
knew that I could ask and answer at least some questions ISI was the
institution where the famed British polymath and geneticist J B S
Haldane came to in 1957 and became one of the architects of my
undergraduate program Although Haldane died in 1964 his ghost
was still around when I was a student at the ISI That I would do
genetics and be a scientist particularly in human genetics was
therefore a no brainer
Could you briefly take us through your scientific journey and
about your interest in genetics
My interest in genetics was established at the ISI but no less fueled by
my reading of Jim Watson‟s The Double Helix in 1970 and then as
credited by Watson and Crick Erwin Schrodinger‟s What is Life As a
student of the quantitative sciences at ISI the part of genetics that
appealed to me (simply because I could digest it) was Population
Genetics Also ISI had a Department of Human Genetics that
performed numerous studies of human genetic molecular diversity
across populations in India So my early training was in studies of
human population diversity Nevertheless Haldane‟s research (that I
was increasingly becoming aware of) was equally in family studies
that exemplified mechanisms not evident in population studies So as
a student I conducted and published research into the inheritance of
simply observable traits (bdquohand clasping‟ or the phenotype where you
classify individuals by whether they fold their left thumb over their
right or vice versahelliptry it only one way feels correct) just to learn
genetics and to attempt to combine the family and the population
methods that are so common today Fortunately by this time I had left
myself few opportunities to be interested in doing anything else but
human genetics
5
IN CONVERSATION WITH Dr Aravinda Chakravarti
Being rejected by several programs to study genetics in India
(because I was not a biology undergraduate) I chose to do graduate
work with the noted geneticist and molecular evolutionist Masatoshi
Nei at the University of Texas Houston where he had just moved I
arrived in Houston in 1974 and was immediately thrust into a small
intense center with brilliant people and expected to perform research
at a level I was surely unaccustomed to This group was the epicenter
of the then neutralist-selectionist debate in molecular evolution a
problem that was exciting but not my cup of tea I wanted to study
human genetics and finally fashioned a research project with Nei that
explored the theoretical consequences of improved genetic counseling
with linkage and association (linkage disequilibrium) markers and
graduated with a PhD in 1979 This research was not only far ahead
of its time coming before the proposal of creating a human linkage
map using RFLPs (restriction fragment length polymorphism) in 1980
but I was the only Nei student who worked outside molecular
evolution In many ways then my development in genetics became
very broad and haphazard since I often focused on areas that were
not my primary training grounds
By this time I was a geneticist but thought I needed further training in
genetic epidemiology to understand human disease better However
after an unsuccessful postdoc at Seattle I abandoned this idea to
take a non-tenured teaching position at the University of Pittsburgh
thinking that the bdquofree‟ time I would have would allow me to catch up
on the revolution in recombinant DNA technology that was underway I
am glad I did since this was one of the best
professional decisions I made by forgoing
the standard path
I taught at Pittsburgh for 5 years and subsequently obtained an NIH
Research Career Development Award to pursue a research career
That began my standard research career in human genetics
What according to you are the challenges in your field of
research
The field of human genetics is not the one I trained in since so much
has changed with the sequencing of the human genome Human
genetics has two distinct themes one descriptive as to the causes of
human variation be it molecular or phenotypic (the bdquohow‟ question)
and a second mechanistic as to how variation in molecular
mechanisms impact phenotype variation particularly disease (the
bdquowhy‟ question) The whole attraction of the human genome project to
me and others like me who spent more than a decade on building the
now available community resources (maps clones sequences variants
transcripts etc) was to move from the first set to the second set of
questions This transformation is difficult since it is not in the comfort
zone of conventional human genetics its hard and unpredictable
much more hypothesis-driven and much more experimental The
challenge in my field and in many associated medical specialties is
that it‟s far easier to do the first then the second Scientists are voting
with their feet Human geneticists are far more content in sequencing
human genomes finding associations with disease and doing facile
functional annotation than a serious investigation into why does this
gene causes type 2 diabetes and the next one congenital cataract
Or why mutations in the same gene cause a neuroendocrine tumor
when activating but congenital aganglionosis when loss-of-function
Or how come the same mutation can act as either activating or loss-
of-function
The biggest challenge in my field is to
overcome the inertia that molecular
description = etiological explanation
If you were not a scientist you would behellip
I really have no idea I presume the Bengali in me implicitly wants
or always wanted to be a writer but that would be a great leap of
faith and quite arrogant Even good scientific writing is hard very
hard indeed I have often read someone else‟s paper that I enjoyed
and thought that I could have done the same work a similar thought
has not appeared after reading someone else‟s creative work except
when it is quite bad
5 What is the best advice you have ever received
Unfortunately most advice that most people get and give is bad
More correctly its difficult to know (what‟s the test) when it is good
and when bad Each of us likely adapt a post-hoc explanation to our
stories all of which are likely revisionist Nevertheless two different
people (a brother and a family friend) at about the same time
(1979-1982) told me to abandon what I was doing (an unsuccessful
postdoc and forcing myself to complete reading a fairly racist
account of the Black Hole of Calcutta) because it was beyond my
enjoyment They both suggested that I drop it and do something else
One should not shoulder a burden that is great unless some higher
purpose is at stake One needs to learn how to apportion risk with
benefit
Your message for young students and researchers
Science is difficult but exhilarating in its rare moments of success
and it‟s usually followed by long periods of stasis It is a great but
frustrating life and there are many worse ways of making a living It
is like other types of creative endeavors where discovery is real but
rare If you wish to do it be sure you can enjoy its moods Science
today is also multidisciplinary and translational its application to
humans and other benefits can also be tangible sources of pride But
do it not for these benefits do it because the science gives you great
joy Yes joy Consider that you are one in an
unbroken intellectual chain from Johannes
Kepler and Isaac Newton If you choose
science you are special
Dr Chakravarti‟s laboratory focuses on the development and
applications of molecular genetic genomic and computational
methods for identification of human disease genes through
genetic dissectionldquo He has been a key participant and architect
of the Human Genome HapMap and 1000 Genomes project Find
out more about his research here
6
Workshop at a glance One-day workshop to equip young science
researchers with tools and strategies for effective communication of
their ideas experiments and scientific results from a science
communication perspective Help them to make science career choices
Vision Science communication plays an integral role in one‟s scientific
career Being able to effectively disseminate research findings within
the community and to consider collective opinions in prioritising
research needs is an important attribute of scientific maturity In
keeping with its mandate to empower future leaders of Indian science
the Wellcome TrustDBT India Alliance periodically conducts one-day
(SciComm101) and two-day (SciComm Hyderabad) science
communication workshops for the past four years This complements
seamlessly with Nature India‟s mandate to showcase India‟s science bdquoas
it happens‟ in laboratories and institutions across the country through
in-depth coverage and analysis of research and science policy The
proposed workshop would be part of Nature India‟s many
communication outreach activities as the one-stop media platform for
India‟s science
The Wellcome TrustDBT India Alliance and Nature India both
represent possibilities for young PhD scholars and postdoctoral
scientists to transition into academic as well as non-academic science
careers Information and advice on how to explore various career
options will form an important part of these workshops with
Naturejobs as the key organiser of the career session
Structure amp format
The workshop will be a one-day event preceding a biomedical (or
scientific) conference organised by reputed science
societiesorganisationsinstitutes and Universities in India A large
participation by PhD students postdoctoral fellows and junior
scientists will be a pre-requisite for holding this workshop Organising
this workshop as part of a conference will ensure participation from a
wide range of institutions across India The workshop will include 3
separate sessions
Session 1 Scientific Writing (moderated by WTDBT Alliance)
Topics to be covered
bull Ethics in research
bull Presentation skills
bull Manuscript writing
bull Grants writing
bull CVs and letters
Session 2 Science Communication (moderated by Nature India)
Topics to be covered
bull Science journalism
bull Popular science writing
bull Effective press releases
bull Hands-on skills on dejargonising science
Session 3 Alternate Science Career (moderated by Nature Jobs)
Topics to be covered
bull Career in the Industry
bull Career in Science PromotionIntellectual Property
bull Career in PolicyGrant organizations Journalism
Science Communication and Career Workshop Series (In partnership with Nature India amp Naturejobs )
Please contact us at workshopswellcomedbtorg to find out more about this series
INDIA ALLIANCE
SCIENCE COMMUNICATION
SciComm101 workshop
10 March 2016 MSU Baroda
Two-day SciComm workshop
21-22 March 2016 Hyderabad Applications under review
For more details visit SciComm Workshop under Quick Links on our website
Upcoming Workshops
5
ABOUT THE ART amp SCIENCE PROJECT
CALL FOR APPLICATIONS THE UNDIVIDED MIND |ART +
SCIENCE RESIDENCY AT KHOJ
Residency Dates March 2nd ndash April 2nd 2015
Application Deadline February 2nd 2015
Proposals are invited for bdquoThe Undivided Mind‟ a four-week
international residency for artists whose work explores the
intersection of art and science
At first it may seem that the pairing of Art amp Science is an atypical
choice as the two fields and methods of practice have almost
universally been represented as diametric opposites of each other
However on closer examination the similarities between artists and
scientists far outweigh their stereotypical differences Both are
dedicated to research and to asking the big question- what is true
Why does it matter How can we move society forward Moreover
both the lab and the studio are spaces that famously encourage
open-ended enquiry and emphasis on process In tune with Khoj‟s
commitment to cultivate an environment that allows for
experimentation and innovation the Art amp Science residency will be
a step towards furthering the explorations of interdisciplinary
practitioners This is the second edition of a Khoj residency focusing
on Art + Science to know more about the first edition please
click bdquohere‟
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
The following India Alliance Fellows will be participating in the
project
(NOTE If an applicant wishes to connect with any of the following
researchers in advance of submitting their proposal please contact
the Khoj team at bdquoapplicationskhojworkshoporg‟ for an
introduction please do the same if you are a scientist and would like
take part in this project )
Dr Venkatasubramanian Ganesan National Institute of Mental
Health and Neurosciences (NIMHANS) Bangalore
Dr Pallab K Maulik The George Institute for Global Health New
Delhi
Dr Anurag Agarwal CSIR-Institute of Genomics amp Integrative
Biology (IGIB) New Delhi
Dr Tavpritesh Sethi All India Institute of Medical Sciences (AIIMS)
New Delhi
Dr Lolitika Mandal Indian Institute of Science Education and
Research (IISER) Mohali
Dr Urvakhsh MehtaNIMHANS Bangalore
Dr Sheetal Gandotra IGIB New Delhi
Visit Khoj website to find out more about the residency and the application process
Apply by
2 February 2016
India Alliance is pleased to announce its support for Art amp Science Project at Khoj International Artists Association New Delhi details of
which can be found below and on the Khoj website It promises to be a great platform for interdisciplinary dialogue and exchange
between scientists and artists and we encourage anyone interested to apply (artists) and get involved (scientists)
THEME
The theme of the 2016 edition of The Undivided Mind is bdquoHealth‟
Within this broader framework three curatorial frameworks or
modes for exploration are suggested Terrestrial Health refers to
that which is on or related to the earth This sub ndash theme suggests an
investigation into the physical health and structure of the body (both
human and animal) the environment the community and the
interrelations between these spheres Mental Health refers to that
which is of or relating to the mind This sub ndash theme focuses on a
psychological investigation of what constitutes Health of the mind
and raises questions about the bdquosocially‟ defined state of well-being
where issues‟ surrounding the legal rights and entitlement of
personhood for those living with a mental disorder is open for
debate Finally Extraterrestrial Health may refer to any object
being or idea beyond the planet Earth This sub ndash theme opens up a
space where the relationship between Earth and other planetary
bodies can be studied What does it mean for human existence when
sending human life forms to Mars is projected to take place by
2020 What are the long term effects and solution to space debris
if life projects out beyond Earth This sub ndash theme also invites
applicants to consider the abstract and metaphorical imaginings of
health in contemporary and future societies
6
Nobel Laureate Dr Harold Varmus recognized for his research on
retroviruses and the genetic basis of cancer gave a lecture on ldquoRecent
Developments in Cancer Researchrdquo at National Institute of Immunology
(NII) New Delhi an event co-organised by NII Wellcome TrustDBT
India Alliance and Department of Biotechnology Government of
India His lecture largely gave an overview of the recent
developments challenges and the future directions in the field of
cancer research which included the current research of his group in
this area
Dr Varmus who had spent time in Bareilly as a young medical
student described cancer as a complex disease that requires
innovative research and treatment strategies At the outset Dr Varmus
introduced the key questions that drive the cancer research field- Is
cancer one disease or many diseases What makes the cancer cell
grow so stably in such an inappropriate manner How does a normal
cell become a cancer cell Providing answers to these questions
formed the backdrop of Dr Varmus‟s lecture which drew from his
research work till date and other advances in the field
Dr Varmus entered the field of cancer research in 1970s as a
postdoctoral scientist in the laboratory of Dr John J Michael Bishop at
University of California San Francisco USA the same year National
Cancer Act was signed in the country Dr Bishop and Dr Varmus
together received the Nobel Prize in Medicine and Physiology in
1989 ldquofor their discovery of the cellular origins of retroviral
oncogenesrdquo During his lecture Dr Varmus confessed standing on the
shoulders of giants of retroviral and cancer research such as Dr
Peyton Rous Dr Harry Rubin and Dr Howard Temin to ask the question
of how retroviruses transformed cells and cause tumours This question
led him to look for genes that make a normal cell behave like a
cancer cell which initially involved studying cancer-causing RNA
virusesretroviruses in animals The retrovirus that played a lead role
in Dr Varmus and his colleague‟s work was the Rous Sarcoma Virus
(RSV) discovered by Dr Peyton Rous in 1911 which he showed caused
a type of cancer in chickens Dr Varmus and colleagues set out to
prove the hypothesis that retroviruses enter host cells and capture
normal genes in that cell by inserting their DNA converting them into
cancer-causing genes or oncogenes Dr Varmus and his group
employed various cellular chemical as well as genetic tools to
establish that retroviruses can indeed act as mutagens by inserting
their DNA in host cells and turning them into cancer cells After this his
group went on to identify the cancer-causing genes present in the
virus and subsequently discovered many new oncogenes v-Src (a
gene of RSV) being the first one Following these discoveries and
subsequently many others led to the belief that the genetic basis of
cancer is highly heterogeneous Dr Varmus told us that in order to
catalogue these complexities the Cancer Genome Atlas was
established in 2005 which till today serves as a collection of the
genetic mutations responsible for different cancers
Apart from the complexity and vastness of the cancer genome
other challenges in the field according to Dr Varmus are genetic
heterogeneity and evolution of tumours due to various environmental
factors such as exposure to UV pollution tobacco use and other
environmental carcinogens that are on the rise He used the example
of renal tumor evolution which illustrates Darwin‟s theory of ldquoevolution
of speciesrdquo to show that this rapidly changing genetic repertoire can
have significant impact on diagnosis therapeutic interventions and
prognosis Another issue of concern highlighted by Dr Varmus was the
absence of suitable drugs against many common targets for cancer
such as cancer-causing RAS genes and many transcription factors
which have been shown to contribute towards cancer formation Dr
Varmus opined that lack of understanding of the underlying
complexity of resistance to cancer therapies is another roadblock in
cancer treatment He was also strongly of the opinion that there are
not enough public health interventions to prevent cancer- this he felt
needs to go hand in hand with finding cure for cancer
Dr Varmus also offered solutions to these problems He suggested
that research needs to ldquolook beyond genes and focus on patterns and
pathwaysrdquo and physiological changes taking place in cancer cells He
shared his group‟s current interest in studying ldquooncogene addictionrdquo
which is based on the premise that some oncogenes not only give rise
to cancer but also maintain the cancerous state of the cells
Interpreting the downstream effects of these cancer genes on the
pathways could be employed as a strategy to attack multiple targets
by drugs in different cancers Even though he hailed the successes of
many commonly used and extremely efficacious anti-cancer drugs
such as Gleevec Gefitinib Erlotinib but in light of growing
complexity of the disease proposed the need for adopting more
innovative drug discovery and treatment approaches Continuing on
the topic of therapeutics Dr Varmus mentioned the recent advances in
immunotherapeutic approaches to treat cancer which would require
us to understand why the otherwise combative immune system does
not kill cancer cells He suggested that gaining understanding of these
immune check points and accordingly targeting them by antibody
inhibitors could serve as one more effective treatment strategy-
another project his research group has undertaken In addition to
these therapeutic approaches Dr Varmus very strongly asserted that
ldquonot everything we talk about cancer should be about cancer therapy
but also about preventionrdquo and that this disease ought to be on the
global health agenda
Dr Varmus very eloquently concluded his talk by stating that
ldquoconfronting cancer needs a balance between grasping its complexity
and seeking simple solutionsrdquo As expected he received many
questions from the audience after his lecture on the genetics and
biology of various cancers potential use of vaccines in cancer
treatment crosstalk of cancer with other diseases and many others to
which he responded with prudence and an underlying sense of
optimism
Prior to his lecture Dr Varmus over an hour meeting with 10 young
cancer researchers discussed their work This group included the
following Wellcome TrustDBT India Alliance Fellows - Dr Reety Arora
(ECF InStem Bangalore) Dr Anjali Bajpai (ECF IIT Kanpur) Dr
Bushra Ateeq (Int Fellow IIT Kanpur) Dr Kundan Sengupta (Int Fellow
IISER Pune) and Dr Sandeep Singh (Int Fellow NIBMG Kalyani) Dr
Varmus also sought information on the India Alliance Fellowships and
was impressed by its funding model and reach
LECTURE REPORT
Recent Developments in Cancer Research By Dr Harold Varmus Nobel Prize in Medicine and Physiology Weill Cornell Medical College USA
at
National Institute of Immunology New Delhi
16 November 2015
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
7
ASK THE SCIENTIST about
The Human Brain
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
This section will bring to you answers to those burning scientific questions that you always wanted to ask the guys in the white
coat For this issue we asked some of our Fellows to shed light on the various operations of the brain
How can we measure attention
DR SUPRATIM RAY Indian Institute of Science Bangalore
Intermediate Fellow
Attention can be of different types such as sustained (vigilance)
selective (focusing at one stimulus in the presence of distractors) or
alternating (involves switching) which can be measured using a
variety of cognitive tests (such as test of everyday attention (TEA) or
Posner cuing task) For example in a classical Posner task a subject
is repeatedly shown two stimuli and cued to attend to one of them
and instructed to respond to a change in the stimulus (say by
pressing a button) The cue could be valid (change occurs at the cued
stimulus say for 80 of the trials) invalid (change occurs at the
uncued stimulus) or neutral (ambiguous) Selection attention can be
measured by comparing the accuracy and the time taken to press
the button after stimulus change (called reaction time) for different
cue types
Different components of attention such as orienting towards a
location detecting a target or maintaining vigilance are carried out
by distinct brain areas in the prefrontal and parietal lobes and some
sub-cortical structures (such as superior colliculus) Overall
performance depends not only on how these areas perform but also
how they communicate with each other and on the levels of
neuromodulators such as norepinephrine
How can we sense smell Is it possible to live without this
sense of smell
DR NIXON ABRAHAM Indian Institutes of Science Education amp
Research (IISER) Pune
Intermediate Fellow
Once Dr Lewis Thomas (1913-1993) the poet and a philosopher of
medicine who also served as the dean of the medical schools at the
New York University and Yale was asked to select seven wonders of
the modern world Olfaction (olfactory receptor cell) was fifth in his
list How does the modern fifth wonder that brings us the smell of our
surroundings ndash the good and bad work
The process of making sense of smell start by binding the odor
molecules to the olfactory receptors located in the olfactory sensory
neurons (OSNs) in the nose This binding triggers a series of signal
amplification steps which lead to electrical spikes (so called action
potentials) in OSNs This olfactory information whose intensity is
encoded by varying the number of action potentials is then passed
onto the projection neurons named mitral and tufted cells in the
olfactory bulb These projection neurons whose excitatory actions
are controlled by various inhibitory neurons carry the olfactory
information to the higher centers in the brain so that we perceive the
smell of spicy tasty food and putrid garbage ndash the good and bad
from the environment
Continued
9
Brain waves
measured by EEG
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
What is really happening inside the brain of a Schizophrenia
patient Does it look any different from a normal brain
DR VENKATASUBRAMANIAN GANESAN NIMHANS Bengaluru
Intermediate Fellow
The brain of a schizophrenia patient is reduced in overall volume
with increase in the size of the ventricles (parts of the brain that
contain cerebrospinal fluid) however certain parts like hippocampus
superior temporal gyrus and prefrontal cortex are more affected
than others Using certain advanced brain imaging research studies
(for example high resolution structural MRI functional MRI Magnetic
Resonance Spectroscopy Positron Emission Tomography and Diffusion
Tensor Imaging and similar others) subtle brain abnormalities in
structure function neurochemical profile as well as brain connectivity
have been demonstrated in several brain regions in schizophrenia
patients It is important to note that these findings are obtained
from advanced research studies that have compared brains of a
Why are the mirror neurons called the Minds mirror What do
they reflect
DR URVAKHSH MEHTA National Institute of Mental Health amp
Neurosciences (NIMHANS) Bengaluru
Early Career Fellow
Mirror neurons are specialized nerve cells that discharge when
we perform actions as well as when we observe others perform the
same action Rizzolatti and colleagues accidentally discovered them
in monkeys These neurons also get vicariously activated when we
perceive emotional states of others This unique bdquoexperience sharing‟
property of mirror neurons perhaps enables us to decipher goals
intentions and emotions of others
In several of our daily social interactions we need to take
perspectives of others decipher deception share feelings and
empathize with others The mirror neuron system is an important
brain network that helps us peek into the minds of others and try to
understand people They translate sensory information (eg
observation of an action) into a motor template which is similar to
the format an observer himself uses to perform that very action This
motor template can help us interpret the goals and feelings
underlying observed actions The definitive demonstration of mirror
neurons in humans was as recent as 2010 There is also growing
evidence of a dysfunctional mirror neuron system in psychiatric
disorders like autism and schizophrenia It is a long and exciting
future ahead to decipher spatiotemporal regulatory and genetic
underpinnings of this unique neuronal network ndash this will possibly
help understand and treat social brain disorders better
Schizophrenia
What happens if we loose our sense of smell Loss of olfaction can
be caused by many reasons ranging from viral infections to
neurodegenerative disorders As our emotions and memories are
strongly related to olfaction the loss of this sense can lead to
depressed state and even affect bonding with family members Just
imagine sipping from your morning coffee without sensing it‟s aroma
- our taste could be badly affected by losing sense of smell The
ongoing research at the nasal stem cell level might provide clinical
solutions for the disorders of the olfactory sensory neurons to regain
this wonderful sense
group of schizophrenia patients with that of healthy subjects thus
these are group averaged findings that are currently not applicable
for diagnosing schizophrenia in an individual patient in a regular
clinical setting In ldquoa specific patientrdquo one may not be able to find
any striking abnormality in the physical appearance of the brain (ie
a routine CT or MRI brain scan may not be able to identify any
obvious aberration) Several ongoing research studies are in pursuit
to identify clinically useful biomarker to diagnose schizophrenia
Find out more about Dr Ganesan‟s research on schizophrenia here
Do you have a burning scientific
question
Send them to
publicengagementwellcomedbtorg
Mirror neuron activity in the brain both when the monkey grasps an object
and when it observes the experimenter grasping the object Mirror neurons
were first discovered by Rizzolatti and colleagues when they were studying
motor actions in macque monkeys
10
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
IN CONVERSATION WITH
Dr Aravinda Chakravarti
Dr Aravinda Chakravarti is a Professor of Medicine Pediatrics Molecular Biology amp Genetics and Biostatistics and Director Center
for Complex Disease Genomics at the Johns Hopkins University School of Medicine and the Bloomberg School of Public Health He
also has a long association with the India Alliance as a member of its Clinical and Public Health Research Fellowship committee
What motivated you to become a scientist
I cannot say that it was any one person or one event or any one
point of time that led me to consider doing science Nor did I know
what being a scientist would entail or how one prepared to become
one I was not interested in science nor good at it or anything else for
that matter before the 9th grade But subsequently it was the
concreteness and logic of mathematics and the sciences that
appealed to me I also began reading material outside my textbooks
such as books in the Nuffield Science Series and others I came across
in the Calcutta British Council Library which began giving me a
broader look at the world of science But I was still clueless This was
evident in my applying for almost every conceivable program for
college (Engineering Medicine Geology Agriculture Physics and
Statistics) and being selected but not necessarily into the best schools
or programs Thus bdquosuccess‟ did not clarify my thinking any one bit
Finally I did choose to attend the Indian Statistical Institute (ISI)
outside Calcuttahellipa then beautiful oasis of calm in the politically
turbulent Calcutta of 1970‟s when being young well-read and aware
were enough to raise suspicions in the Calcutta Police (For those who
doubt the serious and mortal danger all young people in Calcutta
were under during this time read the daily newspaper reports from
the 70‟s)
For me Indian Statistical Institute (ISI) was
an escape from reality and an entry into a
synthetic artificial and manufactured world
of quantitative ideas
Our courses over 4 years in a US-style undergraduate were 50
Mathematics and Statistics and 50 an assortment of sciences and
economics (to learn the various domains in which quantitative
reasoning would be critical) where we were taught to ask bdquowhy‟ not
only bdquohow‟ something worked For the first time I found myself in an
atmosphere where understanding mattered more than knowledge
(dont worry knowledge did matter greatly) the pursuit of a job was
a side issue and we were encouraged to discover any area we
wished (or thats how I felt) I also had passionate teachers who were
the very best in the world For the first time I felt liberated learning
was fun and pursuing science as a life seemed like the only natural
thing to do It wasnt a one day transformationhellipby the time I left ISI I
knew that I could ask and answer at least some questions ISI was the
institution where the famed British polymath and geneticist J B S
Haldane came to in 1957 and became one of the architects of my
undergraduate program Although Haldane died in 1964 his ghost
was still around when I was a student at the ISI That I would do
genetics and be a scientist particularly in human genetics was
therefore a no brainer
Could you briefly take us through your scientific journey and
about your interest in genetics
My interest in genetics was established at the ISI but no less fueled by
my reading of Jim Watson‟s The Double Helix in 1970 and then as
credited by Watson and Crick Erwin Schrodinger‟s What is Life As a
student of the quantitative sciences at ISI the part of genetics that
appealed to me (simply because I could digest it) was Population
Genetics Also ISI had a Department of Human Genetics that
performed numerous studies of human genetic molecular diversity
across populations in India So my early training was in studies of
human population diversity Nevertheless Haldane‟s research (that I
was increasingly becoming aware of) was equally in family studies
that exemplified mechanisms not evident in population studies So as
a student I conducted and published research into the inheritance of
simply observable traits (bdquohand clasping‟ or the phenotype where you
classify individuals by whether they fold their left thumb over their
right or vice versahelliptry it only one way feels correct) just to learn
genetics and to attempt to combine the family and the population
methods that are so common today Fortunately by this time I had left
myself few opportunities to be interested in doing anything else but
human genetics
5
IN CONVERSATION WITH Dr Aravinda Chakravarti
Being rejected by several programs to study genetics in India
(because I was not a biology undergraduate) I chose to do graduate
work with the noted geneticist and molecular evolutionist Masatoshi
Nei at the University of Texas Houston where he had just moved I
arrived in Houston in 1974 and was immediately thrust into a small
intense center with brilliant people and expected to perform research
at a level I was surely unaccustomed to This group was the epicenter
of the then neutralist-selectionist debate in molecular evolution a
problem that was exciting but not my cup of tea I wanted to study
human genetics and finally fashioned a research project with Nei that
explored the theoretical consequences of improved genetic counseling
with linkage and association (linkage disequilibrium) markers and
graduated with a PhD in 1979 This research was not only far ahead
of its time coming before the proposal of creating a human linkage
map using RFLPs (restriction fragment length polymorphism) in 1980
but I was the only Nei student who worked outside molecular
evolution In many ways then my development in genetics became
very broad and haphazard since I often focused on areas that were
not my primary training grounds
By this time I was a geneticist but thought I needed further training in
genetic epidemiology to understand human disease better However
after an unsuccessful postdoc at Seattle I abandoned this idea to
take a non-tenured teaching position at the University of Pittsburgh
thinking that the bdquofree‟ time I would have would allow me to catch up
on the revolution in recombinant DNA technology that was underway I
am glad I did since this was one of the best
professional decisions I made by forgoing
the standard path
I taught at Pittsburgh for 5 years and subsequently obtained an NIH
Research Career Development Award to pursue a research career
That began my standard research career in human genetics
What according to you are the challenges in your field of
research
The field of human genetics is not the one I trained in since so much
has changed with the sequencing of the human genome Human
genetics has two distinct themes one descriptive as to the causes of
human variation be it molecular or phenotypic (the bdquohow‟ question)
and a second mechanistic as to how variation in molecular
mechanisms impact phenotype variation particularly disease (the
bdquowhy‟ question) The whole attraction of the human genome project to
me and others like me who spent more than a decade on building the
now available community resources (maps clones sequences variants
transcripts etc) was to move from the first set to the second set of
questions This transformation is difficult since it is not in the comfort
zone of conventional human genetics its hard and unpredictable
much more hypothesis-driven and much more experimental The
challenge in my field and in many associated medical specialties is
that it‟s far easier to do the first then the second Scientists are voting
with their feet Human geneticists are far more content in sequencing
human genomes finding associations with disease and doing facile
functional annotation than a serious investigation into why does this
gene causes type 2 diabetes and the next one congenital cataract
Or why mutations in the same gene cause a neuroendocrine tumor
when activating but congenital aganglionosis when loss-of-function
Or how come the same mutation can act as either activating or loss-
of-function
The biggest challenge in my field is to
overcome the inertia that molecular
description = etiological explanation
If you were not a scientist you would behellip
I really have no idea I presume the Bengali in me implicitly wants
or always wanted to be a writer but that would be a great leap of
faith and quite arrogant Even good scientific writing is hard very
hard indeed I have often read someone else‟s paper that I enjoyed
and thought that I could have done the same work a similar thought
has not appeared after reading someone else‟s creative work except
when it is quite bad
5 What is the best advice you have ever received
Unfortunately most advice that most people get and give is bad
More correctly its difficult to know (what‟s the test) when it is good
and when bad Each of us likely adapt a post-hoc explanation to our
stories all of which are likely revisionist Nevertheless two different
people (a brother and a family friend) at about the same time
(1979-1982) told me to abandon what I was doing (an unsuccessful
postdoc and forcing myself to complete reading a fairly racist
account of the Black Hole of Calcutta) because it was beyond my
enjoyment They both suggested that I drop it and do something else
One should not shoulder a burden that is great unless some higher
purpose is at stake One needs to learn how to apportion risk with
benefit
Your message for young students and researchers
Science is difficult but exhilarating in its rare moments of success
and it‟s usually followed by long periods of stasis It is a great but
frustrating life and there are many worse ways of making a living It
is like other types of creative endeavors where discovery is real but
rare If you wish to do it be sure you can enjoy its moods Science
today is also multidisciplinary and translational its application to
humans and other benefits can also be tangible sources of pride But
do it not for these benefits do it because the science gives you great
joy Yes joy Consider that you are one in an
unbroken intellectual chain from Johannes
Kepler and Isaac Newton If you choose
science you are special
Dr Chakravarti‟s laboratory focuses on the development and
applications of molecular genetic genomic and computational
methods for identification of human disease genes through
genetic dissectionldquo He has been a key participant and architect
of the Human Genome HapMap and 1000 Genomes project Find
out more about his research here
6
Workshop at a glance One-day workshop to equip young science
researchers with tools and strategies for effective communication of
their ideas experiments and scientific results from a science
communication perspective Help them to make science career choices
Vision Science communication plays an integral role in one‟s scientific
career Being able to effectively disseminate research findings within
the community and to consider collective opinions in prioritising
research needs is an important attribute of scientific maturity In
keeping with its mandate to empower future leaders of Indian science
the Wellcome TrustDBT India Alliance periodically conducts one-day
(SciComm101) and two-day (SciComm Hyderabad) science
communication workshops for the past four years This complements
seamlessly with Nature India‟s mandate to showcase India‟s science bdquoas
it happens‟ in laboratories and institutions across the country through
in-depth coverage and analysis of research and science policy The
proposed workshop would be part of Nature India‟s many
communication outreach activities as the one-stop media platform for
India‟s science
The Wellcome TrustDBT India Alliance and Nature India both
represent possibilities for young PhD scholars and postdoctoral
scientists to transition into academic as well as non-academic science
careers Information and advice on how to explore various career
options will form an important part of these workshops with
Naturejobs as the key organiser of the career session
Structure amp format
The workshop will be a one-day event preceding a biomedical (or
scientific) conference organised by reputed science
societiesorganisationsinstitutes and Universities in India A large
participation by PhD students postdoctoral fellows and junior
scientists will be a pre-requisite for holding this workshop Organising
this workshop as part of a conference will ensure participation from a
wide range of institutions across India The workshop will include 3
separate sessions
Session 1 Scientific Writing (moderated by WTDBT Alliance)
Topics to be covered
bull Ethics in research
bull Presentation skills
bull Manuscript writing
bull Grants writing
bull CVs and letters
Session 2 Science Communication (moderated by Nature India)
Topics to be covered
bull Science journalism
bull Popular science writing
bull Effective press releases
bull Hands-on skills on dejargonising science
Session 3 Alternate Science Career (moderated by Nature Jobs)
Topics to be covered
bull Career in the Industry
bull Career in Science PromotionIntellectual Property
bull Career in PolicyGrant organizations Journalism
Science Communication and Career Workshop Series (In partnership with Nature India amp Naturejobs )
Please contact us at workshopswellcomedbtorg to find out more about this series
INDIA ALLIANCE
SCIENCE COMMUNICATION
SciComm101 workshop
10 March 2016 MSU Baroda
Two-day SciComm workshop
21-22 March 2016 Hyderabad Applications under review
For more details visit SciComm Workshop under Quick Links on our website
Upcoming Workshops
5
ABOUT THE ART amp SCIENCE PROJECT
CALL FOR APPLICATIONS THE UNDIVIDED MIND |ART +
SCIENCE RESIDENCY AT KHOJ
Residency Dates March 2nd ndash April 2nd 2015
Application Deadline February 2nd 2015
Proposals are invited for bdquoThe Undivided Mind‟ a four-week
international residency for artists whose work explores the
intersection of art and science
At first it may seem that the pairing of Art amp Science is an atypical
choice as the two fields and methods of practice have almost
universally been represented as diametric opposites of each other
However on closer examination the similarities between artists and
scientists far outweigh their stereotypical differences Both are
dedicated to research and to asking the big question- what is true
Why does it matter How can we move society forward Moreover
both the lab and the studio are spaces that famously encourage
open-ended enquiry and emphasis on process In tune with Khoj‟s
commitment to cultivate an environment that allows for
experimentation and innovation the Art amp Science residency will be
a step towards furthering the explorations of interdisciplinary
practitioners This is the second edition of a Khoj residency focusing
on Art + Science to know more about the first edition please
click bdquohere‟
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
The following India Alliance Fellows will be participating in the
project
(NOTE If an applicant wishes to connect with any of the following
researchers in advance of submitting their proposal please contact
the Khoj team at bdquoapplicationskhojworkshoporg‟ for an
introduction please do the same if you are a scientist and would like
take part in this project )
Dr Venkatasubramanian Ganesan National Institute of Mental
Health and Neurosciences (NIMHANS) Bangalore
Dr Pallab K Maulik The George Institute for Global Health New
Delhi
Dr Anurag Agarwal CSIR-Institute of Genomics amp Integrative
Biology (IGIB) New Delhi
Dr Tavpritesh Sethi All India Institute of Medical Sciences (AIIMS)
New Delhi
Dr Lolitika Mandal Indian Institute of Science Education and
Research (IISER) Mohali
Dr Urvakhsh MehtaNIMHANS Bangalore
Dr Sheetal Gandotra IGIB New Delhi
Visit Khoj website to find out more about the residency and the application process
Apply by
2 February 2016
India Alliance is pleased to announce its support for Art amp Science Project at Khoj International Artists Association New Delhi details of
which can be found below and on the Khoj website It promises to be a great platform for interdisciplinary dialogue and exchange
between scientists and artists and we encourage anyone interested to apply (artists) and get involved (scientists)
THEME
The theme of the 2016 edition of The Undivided Mind is bdquoHealth‟
Within this broader framework three curatorial frameworks or
modes for exploration are suggested Terrestrial Health refers to
that which is on or related to the earth This sub ndash theme suggests an
investigation into the physical health and structure of the body (both
human and animal) the environment the community and the
interrelations between these spheres Mental Health refers to that
which is of or relating to the mind This sub ndash theme focuses on a
psychological investigation of what constitutes Health of the mind
and raises questions about the bdquosocially‟ defined state of well-being
where issues‟ surrounding the legal rights and entitlement of
personhood for those living with a mental disorder is open for
debate Finally Extraterrestrial Health may refer to any object
being or idea beyond the planet Earth This sub ndash theme opens up a
space where the relationship between Earth and other planetary
bodies can be studied What does it mean for human existence when
sending human life forms to Mars is projected to take place by
2020 What are the long term effects and solution to space debris
if life projects out beyond Earth This sub ndash theme also invites
applicants to consider the abstract and metaphorical imaginings of
health in contemporary and future societies
6
Nobel Laureate Dr Harold Varmus recognized for his research on
retroviruses and the genetic basis of cancer gave a lecture on ldquoRecent
Developments in Cancer Researchrdquo at National Institute of Immunology
(NII) New Delhi an event co-organised by NII Wellcome TrustDBT
India Alliance and Department of Biotechnology Government of
India His lecture largely gave an overview of the recent
developments challenges and the future directions in the field of
cancer research which included the current research of his group in
this area
Dr Varmus who had spent time in Bareilly as a young medical
student described cancer as a complex disease that requires
innovative research and treatment strategies At the outset Dr Varmus
introduced the key questions that drive the cancer research field- Is
cancer one disease or many diseases What makes the cancer cell
grow so stably in such an inappropriate manner How does a normal
cell become a cancer cell Providing answers to these questions
formed the backdrop of Dr Varmus‟s lecture which drew from his
research work till date and other advances in the field
Dr Varmus entered the field of cancer research in 1970s as a
postdoctoral scientist in the laboratory of Dr John J Michael Bishop at
University of California San Francisco USA the same year National
Cancer Act was signed in the country Dr Bishop and Dr Varmus
together received the Nobel Prize in Medicine and Physiology in
1989 ldquofor their discovery of the cellular origins of retroviral
oncogenesrdquo During his lecture Dr Varmus confessed standing on the
shoulders of giants of retroviral and cancer research such as Dr
Peyton Rous Dr Harry Rubin and Dr Howard Temin to ask the question
of how retroviruses transformed cells and cause tumours This question
led him to look for genes that make a normal cell behave like a
cancer cell which initially involved studying cancer-causing RNA
virusesretroviruses in animals The retrovirus that played a lead role
in Dr Varmus and his colleague‟s work was the Rous Sarcoma Virus
(RSV) discovered by Dr Peyton Rous in 1911 which he showed caused
a type of cancer in chickens Dr Varmus and colleagues set out to
prove the hypothesis that retroviruses enter host cells and capture
normal genes in that cell by inserting their DNA converting them into
cancer-causing genes or oncogenes Dr Varmus and his group
employed various cellular chemical as well as genetic tools to
establish that retroviruses can indeed act as mutagens by inserting
their DNA in host cells and turning them into cancer cells After this his
group went on to identify the cancer-causing genes present in the
virus and subsequently discovered many new oncogenes v-Src (a
gene of RSV) being the first one Following these discoveries and
subsequently many others led to the belief that the genetic basis of
cancer is highly heterogeneous Dr Varmus told us that in order to
catalogue these complexities the Cancer Genome Atlas was
established in 2005 which till today serves as a collection of the
genetic mutations responsible for different cancers
Apart from the complexity and vastness of the cancer genome
other challenges in the field according to Dr Varmus are genetic
heterogeneity and evolution of tumours due to various environmental
factors such as exposure to UV pollution tobacco use and other
environmental carcinogens that are on the rise He used the example
of renal tumor evolution which illustrates Darwin‟s theory of ldquoevolution
of speciesrdquo to show that this rapidly changing genetic repertoire can
have significant impact on diagnosis therapeutic interventions and
prognosis Another issue of concern highlighted by Dr Varmus was the
absence of suitable drugs against many common targets for cancer
such as cancer-causing RAS genes and many transcription factors
which have been shown to contribute towards cancer formation Dr
Varmus opined that lack of understanding of the underlying
complexity of resistance to cancer therapies is another roadblock in
cancer treatment He was also strongly of the opinion that there are
not enough public health interventions to prevent cancer- this he felt
needs to go hand in hand with finding cure for cancer
Dr Varmus also offered solutions to these problems He suggested
that research needs to ldquolook beyond genes and focus on patterns and
pathwaysrdquo and physiological changes taking place in cancer cells He
shared his group‟s current interest in studying ldquooncogene addictionrdquo
which is based on the premise that some oncogenes not only give rise
to cancer but also maintain the cancerous state of the cells
Interpreting the downstream effects of these cancer genes on the
pathways could be employed as a strategy to attack multiple targets
by drugs in different cancers Even though he hailed the successes of
many commonly used and extremely efficacious anti-cancer drugs
such as Gleevec Gefitinib Erlotinib but in light of growing
complexity of the disease proposed the need for adopting more
innovative drug discovery and treatment approaches Continuing on
the topic of therapeutics Dr Varmus mentioned the recent advances in
immunotherapeutic approaches to treat cancer which would require
us to understand why the otherwise combative immune system does
not kill cancer cells He suggested that gaining understanding of these
immune check points and accordingly targeting them by antibody
inhibitors could serve as one more effective treatment strategy-
another project his research group has undertaken In addition to
these therapeutic approaches Dr Varmus very strongly asserted that
ldquonot everything we talk about cancer should be about cancer therapy
but also about preventionrdquo and that this disease ought to be on the
global health agenda
Dr Varmus very eloquently concluded his talk by stating that
ldquoconfronting cancer needs a balance between grasping its complexity
and seeking simple solutionsrdquo As expected he received many
questions from the audience after his lecture on the genetics and
biology of various cancers potential use of vaccines in cancer
treatment crosstalk of cancer with other diseases and many others to
which he responded with prudence and an underlying sense of
optimism
Prior to his lecture Dr Varmus over an hour meeting with 10 young
cancer researchers discussed their work This group included the
following Wellcome TrustDBT India Alliance Fellows - Dr Reety Arora
(ECF InStem Bangalore) Dr Anjali Bajpai (ECF IIT Kanpur) Dr
Bushra Ateeq (Int Fellow IIT Kanpur) Dr Kundan Sengupta (Int Fellow
IISER Pune) and Dr Sandeep Singh (Int Fellow NIBMG Kalyani) Dr
Varmus also sought information on the India Alliance Fellowships and
was impressed by its funding model and reach
LECTURE REPORT
Recent Developments in Cancer Research By Dr Harold Varmus Nobel Prize in Medicine and Physiology Weill Cornell Medical College USA
at
National Institute of Immunology New Delhi
16 November 2015
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
7
ASK THE SCIENTIST about
The Human Brain
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
This section will bring to you answers to those burning scientific questions that you always wanted to ask the guys in the white
coat For this issue we asked some of our Fellows to shed light on the various operations of the brain
How can we measure attention
DR SUPRATIM RAY Indian Institute of Science Bangalore
Intermediate Fellow
Attention can be of different types such as sustained (vigilance)
selective (focusing at one stimulus in the presence of distractors) or
alternating (involves switching) which can be measured using a
variety of cognitive tests (such as test of everyday attention (TEA) or
Posner cuing task) For example in a classical Posner task a subject
is repeatedly shown two stimuli and cued to attend to one of them
and instructed to respond to a change in the stimulus (say by
pressing a button) The cue could be valid (change occurs at the cued
stimulus say for 80 of the trials) invalid (change occurs at the
uncued stimulus) or neutral (ambiguous) Selection attention can be
measured by comparing the accuracy and the time taken to press
the button after stimulus change (called reaction time) for different
cue types
Different components of attention such as orienting towards a
location detecting a target or maintaining vigilance are carried out
by distinct brain areas in the prefrontal and parietal lobes and some
sub-cortical structures (such as superior colliculus) Overall
performance depends not only on how these areas perform but also
how they communicate with each other and on the levels of
neuromodulators such as norepinephrine
How can we sense smell Is it possible to live without this
sense of smell
DR NIXON ABRAHAM Indian Institutes of Science Education amp
Research (IISER) Pune
Intermediate Fellow
Once Dr Lewis Thomas (1913-1993) the poet and a philosopher of
medicine who also served as the dean of the medical schools at the
New York University and Yale was asked to select seven wonders of
the modern world Olfaction (olfactory receptor cell) was fifth in his
list How does the modern fifth wonder that brings us the smell of our
surroundings ndash the good and bad work
The process of making sense of smell start by binding the odor
molecules to the olfactory receptors located in the olfactory sensory
neurons (OSNs) in the nose This binding triggers a series of signal
amplification steps which lead to electrical spikes (so called action
potentials) in OSNs This olfactory information whose intensity is
encoded by varying the number of action potentials is then passed
onto the projection neurons named mitral and tufted cells in the
olfactory bulb These projection neurons whose excitatory actions
are controlled by various inhibitory neurons carry the olfactory
information to the higher centers in the brain so that we perceive the
smell of spicy tasty food and putrid garbage ndash the good and bad
from the environment
Continued
9
Brain waves
measured by EEG
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
What is really happening inside the brain of a Schizophrenia
patient Does it look any different from a normal brain
DR VENKATASUBRAMANIAN GANESAN NIMHANS Bengaluru
Intermediate Fellow
The brain of a schizophrenia patient is reduced in overall volume
with increase in the size of the ventricles (parts of the brain that
contain cerebrospinal fluid) however certain parts like hippocampus
superior temporal gyrus and prefrontal cortex are more affected
than others Using certain advanced brain imaging research studies
(for example high resolution structural MRI functional MRI Magnetic
Resonance Spectroscopy Positron Emission Tomography and Diffusion
Tensor Imaging and similar others) subtle brain abnormalities in
structure function neurochemical profile as well as brain connectivity
have been demonstrated in several brain regions in schizophrenia
patients It is important to note that these findings are obtained
from advanced research studies that have compared brains of a
Why are the mirror neurons called the Minds mirror What do
they reflect
DR URVAKHSH MEHTA National Institute of Mental Health amp
Neurosciences (NIMHANS) Bengaluru
Early Career Fellow
Mirror neurons are specialized nerve cells that discharge when
we perform actions as well as when we observe others perform the
same action Rizzolatti and colleagues accidentally discovered them
in monkeys These neurons also get vicariously activated when we
perceive emotional states of others This unique bdquoexperience sharing‟
property of mirror neurons perhaps enables us to decipher goals
intentions and emotions of others
In several of our daily social interactions we need to take
perspectives of others decipher deception share feelings and
empathize with others The mirror neuron system is an important
brain network that helps us peek into the minds of others and try to
understand people They translate sensory information (eg
observation of an action) into a motor template which is similar to
the format an observer himself uses to perform that very action This
motor template can help us interpret the goals and feelings
underlying observed actions The definitive demonstration of mirror
neurons in humans was as recent as 2010 There is also growing
evidence of a dysfunctional mirror neuron system in psychiatric
disorders like autism and schizophrenia It is a long and exciting
future ahead to decipher spatiotemporal regulatory and genetic
underpinnings of this unique neuronal network ndash this will possibly
help understand and treat social brain disorders better
Schizophrenia
What happens if we loose our sense of smell Loss of olfaction can
be caused by many reasons ranging from viral infections to
neurodegenerative disorders As our emotions and memories are
strongly related to olfaction the loss of this sense can lead to
depressed state and even affect bonding with family members Just
imagine sipping from your morning coffee without sensing it‟s aroma
- our taste could be badly affected by losing sense of smell The
ongoing research at the nasal stem cell level might provide clinical
solutions for the disorders of the olfactory sensory neurons to regain
this wonderful sense
group of schizophrenia patients with that of healthy subjects thus
these are group averaged findings that are currently not applicable
for diagnosing schizophrenia in an individual patient in a regular
clinical setting In ldquoa specific patientrdquo one may not be able to find
any striking abnormality in the physical appearance of the brain (ie
a routine CT or MRI brain scan may not be able to identify any
obvious aberration) Several ongoing research studies are in pursuit
to identify clinically useful biomarker to diagnose schizophrenia
Find out more about Dr Ganesan‟s research on schizophrenia here
Do you have a burning scientific
question
Send them to
publicengagementwellcomedbtorg
Mirror neuron activity in the brain both when the monkey grasps an object
and when it observes the experimenter grasping the object Mirror neurons
were first discovered by Rizzolatti and colleagues when they were studying
motor actions in macque monkeys
10
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
IN CONVERSATION WITH Dr Aravinda Chakravarti
Being rejected by several programs to study genetics in India
(because I was not a biology undergraduate) I chose to do graduate
work with the noted geneticist and molecular evolutionist Masatoshi
Nei at the University of Texas Houston where he had just moved I
arrived in Houston in 1974 and was immediately thrust into a small
intense center with brilliant people and expected to perform research
at a level I was surely unaccustomed to This group was the epicenter
of the then neutralist-selectionist debate in molecular evolution a
problem that was exciting but not my cup of tea I wanted to study
human genetics and finally fashioned a research project with Nei that
explored the theoretical consequences of improved genetic counseling
with linkage and association (linkage disequilibrium) markers and
graduated with a PhD in 1979 This research was not only far ahead
of its time coming before the proposal of creating a human linkage
map using RFLPs (restriction fragment length polymorphism) in 1980
but I was the only Nei student who worked outside molecular
evolution In many ways then my development in genetics became
very broad and haphazard since I often focused on areas that were
not my primary training grounds
By this time I was a geneticist but thought I needed further training in
genetic epidemiology to understand human disease better However
after an unsuccessful postdoc at Seattle I abandoned this idea to
take a non-tenured teaching position at the University of Pittsburgh
thinking that the bdquofree‟ time I would have would allow me to catch up
on the revolution in recombinant DNA technology that was underway I
am glad I did since this was one of the best
professional decisions I made by forgoing
the standard path
I taught at Pittsburgh for 5 years and subsequently obtained an NIH
Research Career Development Award to pursue a research career
That began my standard research career in human genetics
What according to you are the challenges in your field of
research
The field of human genetics is not the one I trained in since so much
has changed with the sequencing of the human genome Human
genetics has two distinct themes one descriptive as to the causes of
human variation be it molecular or phenotypic (the bdquohow‟ question)
and a second mechanistic as to how variation in molecular
mechanisms impact phenotype variation particularly disease (the
bdquowhy‟ question) The whole attraction of the human genome project to
me and others like me who spent more than a decade on building the
now available community resources (maps clones sequences variants
transcripts etc) was to move from the first set to the second set of
questions This transformation is difficult since it is not in the comfort
zone of conventional human genetics its hard and unpredictable
much more hypothesis-driven and much more experimental The
challenge in my field and in many associated medical specialties is
that it‟s far easier to do the first then the second Scientists are voting
with their feet Human geneticists are far more content in sequencing
human genomes finding associations with disease and doing facile
functional annotation than a serious investigation into why does this
gene causes type 2 diabetes and the next one congenital cataract
Or why mutations in the same gene cause a neuroendocrine tumor
when activating but congenital aganglionosis when loss-of-function
Or how come the same mutation can act as either activating or loss-
of-function
The biggest challenge in my field is to
overcome the inertia that molecular
description = etiological explanation
If you were not a scientist you would behellip
I really have no idea I presume the Bengali in me implicitly wants
or always wanted to be a writer but that would be a great leap of
faith and quite arrogant Even good scientific writing is hard very
hard indeed I have often read someone else‟s paper that I enjoyed
and thought that I could have done the same work a similar thought
has not appeared after reading someone else‟s creative work except
when it is quite bad
5 What is the best advice you have ever received
Unfortunately most advice that most people get and give is bad
More correctly its difficult to know (what‟s the test) when it is good
and when bad Each of us likely adapt a post-hoc explanation to our
stories all of which are likely revisionist Nevertheless two different
people (a brother and a family friend) at about the same time
(1979-1982) told me to abandon what I was doing (an unsuccessful
postdoc and forcing myself to complete reading a fairly racist
account of the Black Hole of Calcutta) because it was beyond my
enjoyment They both suggested that I drop it and do something else
One should not shoulder a burden that is great unless some higher
purpose is at stake One needs to learn how to apportion risk with
benefit
Your message for young students and researchers
Science is difficult but exhilarating in its rare moments of success
and it‟s usually followed by long periods of stasis It is a great but
frustrating life and there are many worse ways of making a living It
is like other types of creative endeavors where discovery is real but
rare If you wish to do it be sure you can enjoy its moods Science
today is also multidisciplinary and translational its application to
humans and other benefits can also be tangible sources of pride But
do it not for these benefits do it because the science gives you great
joy Yes joy Consider that you are one in an
unbroken intellectual chain from Johannes
Kepler and Isaac Newton If you choose
science you are special
Dr Chakravarti‟s laboratory focuses on the development and
applications of molecular genetic genomic and computational
methods for identification of human disease genes through
genetic dissectionldquo He has been a key participant and architect
of the Human Genome HapMap and 1000 Genomes project Find
out more about his research here
6
Workshop at a glance One-day workshop to equip young science
researchers with tools and strategies for effective communication of
their ideas experiments and scientific results from a science
communication perspective Help them to make science career choices
Vision Science communication plays an integral role in one‟s scientific
career Being able to effectively disseminate research findings within
the community and to consider collective opinions in prioritising
research needs is an important attribute of scientific maturity In
keeping with its mandate to empower future leaders of Indian science
the Wellcome TrustDBT India Alliance periodically conducts one-day
(SciComm101) and two-day (SciComm Hyderabad) science
communication workshops for the past four years This complements
seamlessly with Nature India‟s mandate to showcase India‟s science bdquoas
it happens‟ in laboratories and institutions across the country through
in-depth coverage and analysis of research and science policy The
proposed workshop would be part of Nature India‟s many
communication outreach activities as the one-stop media platform for
India‟s science
The Wellcome TrustDBT India Alliance and Nature India both
represent possibilities for young PhD scholars and postdoctoral
scientists to transition into academic as well as non-academic science
careers Information and advice on how to explore various career
options will form an important part of these workshops with
Naturejobs as the key organiser of the career session
Structure amp format
The workshop will be a one-day event preceding a biomedical (or
scientific) conference organised by reputed science
societiesorganisationsinstitutes and Universities in India A large
participation by PhD students postdoctoral fellows and junior
scientists will be a pre-requisite for holding this workshop Organising
this workshop as part of a conference will ensure participation from a
wide range of institutions across India The workshop will include 3
separate sessions
Session 1 Scientific Writing (moderated by WTDBT Alliance)
Topics to be covered
bull Ethics in research
bull Presentation skills
bull Manuscript writing
bull Grants writing
bull CVs and letters
Session 2 Science Communication (moderated by Nature India)
Topics to be covered
bull Science journalism
bull Popular science writing
bull Effective press releases
bull Hands-on skills on dejargonising science
Session 3 Alternate Science Career (moderated by Nature Jobs)
Topics to be covered
bull Career in the Industry
bull Career in Science PromotionIntellectual Property
bull Career in PolicyGrant organizations Journalism
Science Communication and Career Workshop Series (In partnership with Nature India amp Naturejobs )
Please contact us at workshopswellcomedbtorg to find out more about this series
INDIA ALLIANCE
SCIENCE COMMUNICATION
SciComm101 workshop
10 March 2016 MSU Baroda
Two-day SciComm workshop
21-22 March 2016 Hyderabad Applications under review
For more details visit SciComm Workshop under Quick Links on our website
Upcoming Workshops
5
ABOUT THE ART amp SCIENCE PROJECT
CALL FOR APPLICATIONS THE UNDIVIDED MIND |ART +
SCIENCE RESIDENCY AT KHOJ
Residency Dates March 2nd ndash April 2nd 2015
Application Deadline February 2nd 2015
Proposals are invited for bdquoThe Undivided Mind‟ a four-week
international residency for artists whose work explores the
intersection of art and science
At first it may seem that the pairing of Art amp Science is an atypical
choice as the two fields and methods of practice have almost
universally been represented as diametric opposites of each other
However on closer examination the similarities between artists and
scientists far outweigh their stereotypical differences Both are
dedicated to research and to asking the big question- what is true
Why does it matter How can we move society forward Moreover
both the lab and the studio are spaces that famously encourage
open-ended enquiry and emphasis on process In tune with Khoj‟s
commitment to cultivate an environment that allows for
experimentation and innovation the Art amp Science residency will be
a step towards furthering the explorations of interdisciplinary
practitioners This is the second edition of a Khoj residency focusing
on Art + Science to know more about the first edition please
click bdquohere‟
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
The following India Alliance Fellows will be participating in the
project
(NOTE If an applicant wishes to connect with any of the following
researchers in advance of submitting their proposal please contact
the Khoj team at bdquoapplicationskhojworkshoporg‟ for an
introduction please do the same if you are a scientist and would like
take part in this project )
Dr Venkatasubramanian Ganesan National Institute of Mental
Health and Neurosciences (NIMHANS) Bangalore
Dr Pallab K Maulik The George Institute for Global Health New
Delhi
Dr Anurag Agarwal CSIR-Institute of Genomics amp Integrative
Biology (IGIB) New Delhi
Dr Tavpritesh Sethi All India Institute of Medical Sciences (AIIMS)
New Delhi
Dr Lolitika Mandal Indian Institute of Science Education and
Research (IISER) Mohali
Dr Urvakhsh MehtaNIMHANS Bangalore
Dr Sheetal Gandotra IGIB New Delhi
Visit Khoj website to find out more about the residency and the application process
Apply by
2 February 2016
India Alliance is pleased to announce its support for Art amp Science Project at Khoj International Artists Association New Delhi details of
which can be found below and on the Khoj website It promises to be a great platform for interdisciplinary dialogue and exchange
between scientists and artists and we encourage anyone interested to apply (artists) and get involved (scientists)
THEME
The theme of the 2016 edition of The Undivided Mind is bdquoHealth‟
Within this broader framework three curatorial frameworks or
modes for exploration are suggested Terrestrial Health refers to
that which is on or related to the earth This sub ndash theme suggests an
investigation into the physical health and structure of the body (both
human and animal) the environment the community and the
interrelations between these spheres Mental Health refers to that
which is of or relating to the mind This sub ndash theme focuses on a
psychological investigation of what constitutes Health of the mind
and raises questions about the bdquosocially‟ defined state of well-being
where issues‟ surrounding the legal rights and entitlement of
personhood for those living with a mental disorder is open for
debate Finally Extraterrestrial Health may refer to any object
being or idea beyond the planet Earth This sub ndash theme opens up a
space where the relationship between Earth and other planetary
bodies can be studied What does it mean for human existence when
sending human life forms to Mars is projected to take place by
2020 What are the long term effects and solution to space debris
if life projects out beyond Earth This sub ndash theme also invites
applicants to consider the abstract and metaphorical imaginings of
health in contemporary and future societies
6
Nobel Laureate Dr Harold Varmus recognized for his research on
retroviruses and the genetic basis of cancer gave a lecture on ldquoRecent
Developments in Cancer Researchrdquo at National Institute of Immunology
(NII) New Delhi an event co-organised by NII Wellcome TrustDBT
India Alliance and Department of Biotechnology Government of
India His lecture largely gave an overview of the recent
developments challenges and the future directions in the field of
cancer research which included the current research of his group in
this area
Dr Varmus who had spent time in Bareilly as a young medical
student described cancer as a complex disease that requires
innovative research and treatment strategies At the outset Dr Varmus
introduced the key questions that drive the cancer research field- Is
cancer one disease or many diseases What makes the cancer cell
grow so stably in such an inappropriate manner How does a normal
cell become a cancer cell Providing answers to these questions
formed the backdrop of Dr Varmus‟s lecture which drew from his
research work till date and other advances in the field
Dr Varmus entered the field of cancer research in 1970s as a
postdoctoral scientist in the laboratory of Dr John J Michael Bishop at
University of California San Francisco USA the same year National
Cancer Act was signed in the country Dr Bishop and Dr Varmus
together received the Nobel Prize in Medicine and Physiology in
1989 ldquofor their discovery of the cellular origins of retroviral
oncogenesrdquo During his lecture Dr Varmus confessed standing on the
shoulders of giants of retroviral and cancer research such as Dr
Peyton Rous Dr Harry Rubin and Dr Howard Temin to ask the question
of how retroviruses transformed cells and cause tumours This question
led him to look for genes that make a normal cell behave like a
cancer cell which initially involved studying cancer-causing RNA
virusesretroviruses in animals The retrovirus that played a lead role
in Dr Varmus and his colleague‟s work was the Rous Sarcoma Virus
(RSV) discovered by Dr Peyton Rous in 1911 which he showed caused
a type of cancer in chickens Dr Varmus and colleagues set out to
prove the hypothesis that retroviruses enter host cells and capture
normal genes in that cell by inserting their DNA converting them into
cancer-causing genes or oncogenes Dr Varmus and his group
employed various cellular chemical as well as genetic tools to
establish that retroviruses can indeed act as mutagens by inserting
their DNA in host cells and turning them into cancer cells After this his
group went on to identify the cancer-causing genes present in the
virus and subsequently discovered many new oncogenes v-Src (a
gene of RSV) being the first one Following these discoveries and
subsequently many others led to the belief that the genetic basis of
cancer is highly heterogeneous Dr Varmus told us that in order to
catalogue these complexities the Cancer Genome Atlas was
established in 2005 which till today serves as a collection of the
genetic mutations responsible for different cancers
Apart from the complexity and vastness of the cancer genome
other challenges in the field according to Dr Varmus are genetic
heterogeneity and evolution of tumours due to various environmental
factors such as exposure to UV pollution tobacco use and other
environmental carcinogens that are on the rise He used the example
of renal tumor evolution which illustrates Darwin‟s theory of ldquoevolution
of speciesrdquo to show that this rapidly changing genetic repertoire can
have significant impact on diagnosis therapeutic interventions and
prognosis Another issue of concern highlighted by Dr Varmus was the
absence of suitable drugs against many common targets for cancer
such as cancer-causing RAS genes and many transcription factors
which have been shown to contribute towards cancer formation Dr
Varmus opined that lack of understanding of the underlying
complexity of resistance to cancer therapies is another roadblock in
cancer treatment He was also strongly of the opinion that there are
not enough public health interventions to prevent cancer- this he felt
needs to go hand in hand with finding cure for cancer
Dr Varmus also offered solutions to these problems He suggested
that research needs to ldquolook beyond genes and focus on patterns and
pathwaysrdquo and physiological changes taking place in cancer cells He
shared his group‟s current interest in studying ldquooncogene addictionrdquo
which is based on the premise that some oncogenes not only give rise
to cancer but also maintain the cancerous state of the cells
Interpreting the downstream effects of these cancer genes on the
pathways could be employed as a strategy to attack multiple targets
by drugs in different cancers Even though he hailed the successes of
many commonly used and extremely efficacious anti-cancer drugs
such as Gleevec Gefitinib Erlotinib but in light of growing
complexity of the disease proposed the need for adopting more
innovative drug discovery and treatment approaches Continuing on
the topic of therapeutics Dr Varmus mentioned the recent advances in
immunotherapeutic approaches to treat cancer which would require
us to understand why the otherwise combative immune system does
not kill cancer cells He suggested that gaining understanding of these
immune check points and accordingly targeting them by antibody
inhibitors could serve as one more effective treatment strategy-
another project his research group has undertaken In addition to
these therapeutic approaches Dr Varmus very strongly asserted that
ldquonot everything we talk about cancer should be about cancer therapy
but also about preventionrdquo and that this disease ought to be on the
global health agenda
Dr Varmus very eloquently concluded his talk by stating that
ldquoconfronting cancer needs a balance between grasping its complexity
and seeking simple solutionsrdquo As expected he received many
questions from the audience after his lecture on the genetics and
biology of various cancers potential use of vaccines in cancer
treatment crosstalk of cancer with other diseases and many others to
which he responded with prudence and an underlying sense of
optimism
Prior to his lecture Dr Varmus over an hour meeting with 10 young
cancer researchers discussed their work This group included the
following Wellcome TrustDBT India Alliance Fellows - Dr Reety Arora
(ECF InStem Bangalore) Dr Anjali Bajpai (ECF IIT Kanpur) Dr
Bushra Ateeq (Int Fellow IIT Kanpur) Dr Kundan Sengupta (Int Fellow
IISER Pune) and Dr Sandeep Singh (Int Fellow NIBMG Kalyani) Dr
Varmus also sought information on the India Alliance Fellowships and
was impressed by its funding model and reach
LECTURE REPORT
Recent Developments in Cancer Research By Dr Harold Varmus Nobel Prize in Medicine and Physiology Weill Cornell Medical College USA
at
National Institute of Immunology New Delhi
16 November 2015
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
7
ASK THE SCIENTIST about
The Human Brain
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
This section will bring to you answers to those burning scientific questions that you always wanted to ask the guys in the white
coat For this issue we asked some of our Fellows to shed light on the various operations of the brain
How can we measure attention
DR SUPRATIM RAY Indian Institute of Science Bangalore
Intermediate Fellow
Attention can be of different types such as sustained (vigilance)
selective (focusing at one stimulus in the presence of distractors) or
alternating (involves switching) which can be measured using a
variety of cognitive tests (such as test of everyday attention (TEA) or
Posner cuing task) For example in a classical Posner task a subject
is repeatedly shown two stimuli and cued to attend to one of them
and instructed to respond to a change in the stimulus (say by
pressing a button) The cue could be valid (change occurs at the cued
stimulus say for 80 of the trials) invalid (change occurs at the
uncued stimulus) or neutral (ambiguous) Selection attention can be
measured by comparing the accuracy and the time taken to press
the button after stimulus change (called reaction time) for different
cue types
Different components of attention such as orienting towards a
location detecting a target or maintaining vigilance are carried out
by distinct brain areas in the prefrontal and parietal lobes and some
sub-cortical structures (such as superior colliculus) Overall
performance depends not only on how these areas perform but also
how they communicate with each other and on the levels of
neuromodulators such as norepinephrine
How can we sense smell Is it possible to live without this
sense of smell
DR NIXON ABRAHAM Indian Institutes of Science Education amp
Research (IISER) Pune
Intermediate Fellow
Once Dr Lewis Thomas (1913-1993) the poet and a philosopher of
medicine who also served as the dean of the medical schools at the
New York University and Yale was asked to select seven wonders of
the modern world Olfaction (olfactory receptor cell) was fifth in his
list How does the modern fifth wonder that brings us the smell of our
surroundings ndash the good and bad work
The process of making sense of smell start by binding the odor
molecules to the olfactory receptors located in the olfactory sensory
neurons (OSNs) in the nose This binding triggers a series of signal
amplification steps which lead to electrical spikes (so called action
potentials) in OSNs This olfactory information whose intensity is
encoded by varying the number of action potentials is then passed
onto the projection neurons named mitral and tufted cells in the
olfactory bulb These projection neurons whose excitatory actions
are controlled by various inhibitory neurons carry the olfactory
information to the higher centers in the brain so that we perceive the
smell of spicy tasty food and putrid garbage ndash the good and bad
from the environment
Continued
9
Brain waves
measured by EEG
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
What is really happening inside the brain of a Schizophrenia
patient Does it look any different from a normal brain
DR VENKATASUBRAMANIAN GANESAN NIMHANS Bengaluru
Intermediate Fellow
The brain of a schizophrenia patient is reduced in overall volume
with increase in the size of the ventricles (parts of the brain that
contain cerebrospinal fluid) however certain parts like hippocampus
superior temporal gyrus and prefrontal cortex are more affected
than others Using certain advanced brain imaging research studies
(for example high resolution structural MRI functional MRI Magnetic
Resonance Spectroscopy Positron Emission Tomography and Diffusion
Tensor Imaging and similar others) subtle brain abnormalities in
structure function neurochemical profile as well as brain connectivity
have been demonstrated in several brain regions in schizophrenia
patients It is important to note that these findings are obtained
from advanced research studies that have compared brains of a
Why are the mirror neurons called the Minds mirror What do
they reflect
DR URVAKHSH MEHTA National Institute of Mental Health amp
Neurosciences (NIMHANS) Bengaluru
Early Career Fellow
Mirror neurons are specialized nerve cells that discharge when
we perform actions as well as when we observe others perform the
same action Rizzolatti and colleagues accidentally discovered them
in monkeys These neurons also get vicariously activated when we
perceive emotional states of others This unique bdquoexperience sharing‟
property of mirror neurons perhaps enables us to decipher goals
intentions and emotions of others
In several of our daily social interactions we need to take
perspectives of others decipher deception share feelings and
empathize with others The mirror neuron system is an important
brain network that helps us peek into the minds of others and try to
understand people They translate sensory information (eg
observation of an action) into a motor template which is similar to
the format an observer himself uses to perform that very action This
motor template can help us interpret the goals and feelings
underlying observed actions The definitive demonstration of mirror
neurons in humans was as recent as 2010 There is also growing
evidence of a dysfunctional mirror neuron system in psychiatric
disorders like autism and schizophrenia It is a long and exciting
future ahead to decipher spatiotemporal regulatory and genetic
underpinnings of this unique neuronal network ndash this will possibly
help understand and treat social brain disorders better
Schizophrenia
What happens if we loose our sense of smell Loss of olfaction can
be caused by many reasons ranging from viral infections to
neurodegenerative disorders As our emotions and memories are
strongly related to olfaction the loss of this sense can lead to
depressed state and even affect bonding with family members Just
imagine sipping from your morning coffee without sensing it‟s aroma
- our taste could be badly affected by losing sense of smell The
ongoing research at the nasal stem cell level might provide clinical
solutions for the disorders of the olfactory sensory neurons to regain
this wonderful sense
group of schizophrenia patients with that of healthy subjects thus
these are group averaged findings that are currently not applicable
for diagnosing schizophrenia in an individual patient in a regular
clinical setting In ldquoa specific patientrdquo one may not be able to find
any striking abnormality in the physical appearance of the brain (ie
a routine CT or MRI brain scan may not be able to identify any
obvious aberration) Several ongoing research studies are in pursuit
to identify clinically useful biomarker to diagnose schizophrenia
Find out more about Dr Ganesan‟s research on schizophrenia here
Do you have a burning scientific
question
Send them to
publicengagementwellcomedbtorg
Mirror neuron activity in the brain both when the monkey grasps an object
and when it observes the experimenter grasping the object Mirror neurons
were first discovered by Rizzolatti and colleagues when they were studying
motor actions in macque monkeys
10
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
Workshop at a glance One-day workshop to equip young science
researchers with tools and strategies for effective communication of
their ideas experiments and scientific results from a science
communication perspective Help them to make science career choices
Vision Science communication plays an integral role in one‟s scientific
career Being able to effectively disseminate research findings within
the community and to consider collective opinions in prioritising
research needs is an important attribute of scientific maturity In
keeping with its mandate to empower future leaders of Indian science
the Wellcome TrustDBT India Alliance periodically conducts one-day
(SciComm101) and two-day (SciComm Hyderabad) science
communication workshops for the past four years This complements
seamlessly with Nature India‟s mandate to showcase India‟s science bdquoas
it happens‟ in laboratories and institutions across the country through
in-depth coverage and analysis of research and science policy The
proposed workshop would be part of Nature India‟s many
communication outreach activities as the one-stop media platform for
India‟s science
The Wellcome TrustDBT India Alliance and Nature India both
represent possibilities for young PhD scholars and postdoctoral
scientists to transition into academic as well as non-academic science
careers Information and advice on how to explore various career
options will form an important part of these workshops with
Naturejobs as the key organiser of the career session
Structure amp format
The workshop will be a one-day event preceding a biomedical (or
scientific) conference organised by reputed science
societiesorganisationsinstitutes and Universities in India A large
participation by PhD students postdoctoral fellows and junior
scientists will be a pre-requisite for holding this workshop Organising
this workshop as part of a conference will ensure participation from a
wide range of institutions across India The workshop will include 3
separate sessions
Session 1 Scientific Writing (moderated by WTDBT Alliance)
Topics to be covered
bull Ethics in research
bull Presentation skills
bull Manuscript writing
bull Grants writing
bull CVs and letters
Session 2 Science Communication (moderated by Nature India)
Topics to be covered
bull Science journalism
bull Popular science writing
bull Effective press releases
bull Hands-on skills on dejargonising science
Session 3 Alternate Science Career (moderated by Nature Jobs)
Topics to be covered
bull Career in the Industry
bull Career in Science PromotionIntellectual Property
bull Career in PolicyGrant organizations Journalism
Science Communication and Career Workshop Series (In partnership with Nature India amp Naturejobs )
Please contact us at workshopswellcomedbtorg to find out more about this series
INDIA ALLIANCE
SCIENCE COMMUNICATION
SciComm101 workshop
10 March 2016 MSU Baroda
Two-day SciComm workshop
21-22 March 2016 Hyderabad Applications under review
For more details visit SciComm Workshop under Quick Links on our website
Upcoming Workshops
5
ABOUT THE ART amp SCIENCE PROJECT
CALL FOR APPLICATIONS THE UNDIVIDED MIND |ART +
SCIENCE RESIDENCY AT KHOJ
Residency Dates March 2nd ndash April 2nd 2015
Application Deadline February 2nd 2015
Proposals are invited for bdquoThe Undivided Mind‟ a four-week
international residency for artists whose work explores the
intersection of art and science
At first it may seem that the pairing of Art amp Science is an atypical
choice as the two fields and methods of practice have almost
universally been represented as diametric opposites of each other
However on closer examination the similarities between artists and
scientists far outweigh their stereotypical differences Both are
dedicated to research and to asking the big question- what is true
Why does it matter How can we move society forward Moreover
both the lab and the studio are spaces that famously encourage
open-ended enquiry and emphasis on process In tune with Khoj‟s
commitment to cultivate an environment that allows for
experimentation and innovation the Art amp Science residency will be
a step towards furthering the explorations of interdisciplinary
practitioners This is the second edition of a Khoj residency focusing
on Art + Science to know more about the first edition please
click bdquohere‟
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
The following India Alliance Fellows will be participating in the
project
(NOTE If an applicant wishes to connect with any of the following
researchers in advance of submitting their proposal please contact
the Khoj team at bdquoapplicationskhojworkshoporg‟ for an
introduction please do the same if you are a scientist and would like
take part in this project )
Dr Venkatasubramanian Ganesan National Institute of Mental
Health and Neurosciences (NIMHANS) Bangalore
Dr Pallab K Maulik The George Institute for Global Health New
Delhi
Dr Anurag Agarwal CSIR-Institute of Genomics amp Integrative
Biology (IGIB) New Delhi
Dr Tavpritesh Sethi All India Institute of Medical Sciences (AIIMS)
New Delhi
Dr Lolitika Mandal Indian Institute of Science Education and
Research (IISER) Mohali
Dr Urvakhsh MehtaNIMHANS Bangalore
Dr Sheetal Gandotra IGIB New Delhi
Visit Khoj website to find out more about the residency and the application process
Apply by
2 February 2016
India Alliance is pleased to announce its support for Art amp Science Project at Khoj International Artists Association New Delhi details of
which can be found below and on the Khoj website It promises to be a great platform for interdisciplinary dialogue and exchange
between scientists and artists and we encourage anyone interested to apply (artists) and get involved (scientists)
THEME
The theme of the 2016 edition of The Undivided Mind is bdquoHealth‟
Within this broader framework three curatorial frameworks or
modes for exploration are suggested Terrestrial Health refers to
that which is on or related to the earth This sub ndash theme suggests an
investigation into the physical health and structure of the body (both
human and animal) the environment the community and the
interrelations between these spheres Mental Health refers to that
which is of or relating to the mind This sub ndash theme focuses on a
psychological investigation of what constitutes Health of the mind
and raises questions about the bdquosocially‟ defined state of well-being
where issues‟ surrounding the legal rights and entitlement of
personhood for those living with a mental disorder is open for
debate Finally Extraterrestrial Health may refer to any object
being or idea beyond the planet Earth This sub ndash theme opens up a
space where the relationship between Earth and other planetary
bodies can be studied What does it mean for human existence when
sending human life forms to Mars is projected to take place by
2020 What are the long term effects and solution to space debris
if life projects out beyond Earth This sub ndash theme also invites
applicants to consider the abstract and metaphorical imaginings of
health in contemporary and future societies
6
Nobel Laureate Dr Harold Varmus recognized for his research on
retroviruses and the genetic basis of cancer gave a lecture on ldquoRecent
Developments in Cancer Researchrdquo at National Institute of Immunology
(NII) New Delhi an event co-organised by NII Wellcome TrustDBT
India Alliance and Department of Biotechnology Government of
India His lecture largely gave an overview of the recent
developments challenges and the future directions in the field of
cancer research which included the current research of his group in
this area
Dr Varmus who had spent time in Bareilly as a young medical
student described cancer as a complex disease that requires
innovative research and treatment strategies At the outset Dr Varmus
introduced the key questions that drive the cancer research field- Is
cancer one disease or many diseases What makes the cancer cell
grow so stably in such an inappropriate manner How does a normal
cell become a cancer cell Providing answers to these questions
formed the backdrop of Dr Varmus‟s lecture which drew from his
research work till date and other advances in the field
Dr Varmus entered the field of cancer research in 1970s as a
postdoctoral scientist in the laboratory of Dr John J Michael Bishop at
University of California San Francisco USA the same year National
Cancer Act was signed in the country Dr Bishop and Dr Varmus
together received the Nobel Prize in Medicine and Physiology in
1989 ldquofor their discovery of the cellular origins of retroviral
oncogenesrdquo During his lecture Dr Varmus confessed standing on the
shoulders of giants of retroviral and cancer research such as Dr
Peyton Rous Dr Harry Rubin and Dr Howard Temin to ask the question
of how retroviruses transformed cells and cause tumours This question
led him to look for genes that make a normal cell behave like a
cancer cell which initially involved studying cancer-causing RNA
virusesretroviruses in animals The retrovirus that played a lead role
in Dr Varmus and his colleague‟s work was the Rous Sarcoma Virus
(RSV) discovered by Dr Peyton Rous in 1911 which he showed caused
a type of cancer in chickens Dr Varmus and colleagues set out to
prove the hypothesis that retroviruses enter host cells and capture
normal genes in that cell by inserting their DNA converting them into
cancer-causing genes or oncogenes Dr Varmus and his group
employed various cellular chemical as well as genetic tools to
establish that retroviruses can indeed act as mutagens by inserting
their DNA in host cells and turning them into cancer cells After this his
group went on to identify the cancer-causing genes present in the
virus and subsequently discovered many new oncogenes v-Src (a
gene of RSV) being the first one Following these discoveries and
subsequently many others led to the belief that the genetic basis of
cancer is highly heterogeneous Dr Varmus told us that in order to
catalogue these complexities the Cancer Genome Atlas was
established in 2005 which till today serves as a collection of the
genetic mutations responsible for different cancers
Apart from the complexity and vastness of the cancer genome
other challenges in the field according to Dr Varmus are genetic
heterogeneity and evolution of tumours due to various environmental
factors such as exposure to UV pollution tobacco use and other
environmental carcinogens that are on the rise He used the example
of renal tumor evolution which illustrates Darwin‟s theory of ldquoevolution
of speciesrdquo to show that this rapidly changing genetic repertoire can
have significant impact on diagnosis therapeutic interventions and
prognosis Another issue of concern highlighted by Dr Varmus was the
absence of suitable drugs against many common targets for cancer
such as cancer-causing RAS genes and many transcription factors
which have been shown to contribute towards cancer formation Dr
Varmus opined that lack of understanding of the underlying
complexity of resistance to cancer therapies is another roadblock in
cancer treatment He was also strongly of the opinion that there are
not enough public health interventions to prevent cancer- this he felt
needs to go hand in hand with finding cure for cancer
Dr Varmus also offered solutions to these problems He suggested
that research needs to ldquolook beyond genes and focus on patterns and
pathwaysrdquo and physiological changes taking place in cancer cells He
shared his group‟s current interest in studying ldquooncogene addictionrdquo
which is based on the premise that some oncogenes not only give rise
to cancer but also maintain the cancerous state of the cells
Interpreting the downstream effects of these cancer genes on the
pathways could be employed as a strategy to attack multiple targets
by drugs in different cancers Even though he hailed the successes of
many commonly used and extremely efficacious anti-cancer drugs
such as Gleevec Gefitinib Erlotinib but in light of growing
complexity of the disease proposed the need for adopting more
innovative drug discovery and treatment approaches Continuing on
the topic of therapeutics Dr Varmus mentioned the recent advances in
immunotherapeutic approaches to treat cancer which would require
us to understand why the otherwise combative immune system does
not kill cancer cells He suggested that gaining understanding of these
immune check points and accordingly targeting them by antibody
inhibitors could serve as one more effective treatment strategy-
another project his research group has undertaken In addition to
these therapeutic approaches Dr Varmus very strongly asserted that
ldquonot everything we talk about cancer should be about cancer therapy
but also about preventionrdquo and that this disease ought to be on the
global health agenda
Dr Varmus very eloquently concluded his talk by stating that
ldquoconfronting cancer needs a balance between grasping its complexity
and seeking simple solutionsrdquo As expected he received many
questions from the audience after his lecture on the genetics and
biology of various cancers potential use of vaccines in cancer
treatment crosstalk of cancer with other diseases and many others to
which he responded with prudence and an underlying sense of
optimism
Prior to his lecture Dr Varmus over an hour meeting with 10 young
cancer researchers discussed their work This group included the
following Wellcome TrustDBT India Alliance Fellows - Dr Reety Arora
(ECF InStem Bangalore) Dr Anjali Bajpai (ECF IIT Kanpur) Dr
Bushra Ateeq (Int Fellow IIT Kanpur) Dr Kundan Sengupta (Int Fellow
IISER Pune) and Dr Sandeep Singh (Int Fellow NIBMG Kalyani) Dr
Varmus also sought information on the India Alliance Fellowships and
was impressed by its funding model and reach
LECTURE REPORT
Recent Developments in Cancer Research By Dr Harold Varmus Nobel Prize in Medicine and Physiology Weill Cornell Medical College USA
at
National Institute of Immunology New Delhi
16 November 2015
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
7
ASK THE SCIENTIST about
The Human Brain
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
This section will bring to you answers to those burning scientific questions that you always wanted to ask the guys in the white
coat For this issue we asked some of our Fellows to shed light on the various operations of the brain
How can we measure attention
DR SUPRATIM RAY Indian Institute of Science Bangalore
Intermediate Fellow
Attention can be of different types such as sustained (vigilance)
selective (focusing at one stimulus in the presence of distractors) or
alternating (involves switching) which can be measured using a
variety of cognitive tests (such as test of everyday attention (TEA) or
Posner cuing task) For example in a classical Posner task a subject
is repeatedly shown two stimuli and cued to attend to one of them
and instructed to respond to a change in the stimulus (say by
pressing a button) The cue could be valid (change occurs at the cued
stimulus say for 80 of the trials) invalid (change occurs at the
uncued stimulus) or neutral (ambiguous) Selection attention can be
measured by comparing the accuracy and the time taken to press
the button after stimulus change (called reaction time) for different
cue types
Different components of attention such as orienting towards a
location detecting a target or maintaining vigilance are carried out
by distinct brain areas in the prefrontal and parietal lobes and some
sub-cortical structures (such as superior colliculus) Overall
performance depends not only on how these areas perform but also
how they communicate with each other and on the levels of
neuromodulators such as norepinephrine
How can we sense smell Is it possible to live without this
sense of smell
DR NIXON ABRAHAM Indian Institutes of Science Education amp
Research (IISER) Pune
Intermediate Fellow
Once Dr Lewis Thomas (1913-1993) the poet and a philosopher of
medicine who also served as the dean of the medical schools at the
New York University and Yale was asked to select seven wonders of
the modern world Olfaction (olfactory receptor cell) was fifth in his
list How does the modern fifth wonder that brings us the smell of our
surroundings ndash the good and bad work
The process of making sense of smell start by binding the odor
molecules to the olfactory receptors located in the olfactory sensory
neurons (OSNs) in the nose This binding triggers a series of signal
amplification steps which lead to electrical spikes (so called action
potentials) in OSNs This olfactory information whose intensity is
encoded by varying the number of action potentials is then passed
onto the projection neurons named mitral and tufted cells in the
olfactory bulb These projection neurons whose excitatory actions
are controlled by various inhibitory neurons carry the olfactory
information to the higher centers in the brain so that we perceive the
smell of spicy tasty food and putrid garbage ndash the good and bad
from the environment
Continued
9
Brain waves
measured by EEG
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
What is really happening inside the brain of a Schizophrenia
patient Does it look any different from a normal brain
DR VENKATASUBRAMANIAN GANESAN NIMHANS Bengaluru
Intermediate Fellow
The brain of a schizophrenia patient is reduced in overall volume
with increase in the size of the ventricles (parts of the brain that
contain cerebrospinal fluid) however certain parts like hippocampus
superior temporal gyrus and prefrontal cortex are more affected
than others Using certain advanced brain imaging research studies
(for example high resolution structural MRI functional MRI Magnetic
Resonance Spectroscopy Positron Emission Tomography and Diffusion
Tensor Imaging and similar others) subtle brain abnormalities in
structure function neurochemical profile as well as brain connectivity
have been demonstrated in several brain regions in schizophrenia
patients It is important to note that these findings are obtained
from advanced research studies that have compared brains of a
Why are the mirror neurons called the Minds mirror What do
they reflect
DR URVAKHSH MEHTA National Institute of Mental Health amp
Neurosciences (NIMHANS) Bengaluru
Early Career Fellow
Mirror neurons are specialized nerve cells that discharge when
we perform actions as well as when we observe others perform the
same action Rizzolatti and colleagues accidentally discovered them
in monkeys These neurons also get vicariously activated when we
perceive emotional states of others This unique bdquoexperience sharing‟
property of mirror neurons perhaps enables us to decipher goals
intentions and emotions of others
In several of our daily social interactions we need to take
perspectives of others decipher deception share feelings and
empathize with others The mirror neuron system is an important
brain network that helps us peek into the minds of others and try to
understand people They translate sensory information (eg
observation of an action) into a motor template which is similar to
the format an observer himself uses to perform that very action This
motor template can help us interpret the goals and feelings
underlying observed actions The definitive demonstration of mirror
neurons in humans was as recent as 2010 There is also growing
evidence of a dysfunctional mirror neuron system in psychiatric
disorders like autism and schizophrenia It is a long and exciting
future ahead to decipher spatiotemporal regulatory and genetic
underpinnings of this unique neuronal network ndash this will possibly
help understand and treat social brain disorders better
Schizophrenia
What happens if we loose our sense of smell Loss of olfaction can
be caused by many reasons ranging from viral infections to
neurodegenerative disorders As our emotions and memories are
strongly related to olfaction the loss of this sense can lead to
depressed state and even affect bonding with family members Just
imagine sipping from your morning coffee without sensing it‟s aroma
- our taste could be badly affected by losing sense of smell The
ongoing research at the nasal stem cell level might provide clinical
solutions for the disorders of the olfactory sensory neurons to regain
this wonderful sense
group of schizophrenia patients with that of healthy subjects thus
these are group averaged findings that are currently not applicable
for diagnosing schizophrenia in an individual patient in a regular
clinical setting In ldquoa specific patientrdquo one may not be able to find
any striking abnormality in the physical appearance of the brain (ie
a routine CT or MRI brain scan may not be able to identify any
obvious aberration) Several ongoing research studies are in pursuit
to identify clinically useful biomarker to diagnose schizophrenia
Find out more about Dr Ganesan‟s research on schizophrenia here
Do you have a burning scientific
question
Send them to
publicengagementwellcomedbtorg
Mirror neuron activity in the brain both when the monkey grasps an object
and when it observes the experimenter grasping the object Mirror neurons
were first discovered by Rizzolatti and colleagues when they were studying
motor actions in macque monkeys
10
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
ABOUT THE ART amp SCIENCE PROJECT
CALL FOR APPLICATIONS THE UNDIVIDED MIND |ART +
SCIENCE RESIDENCY AT KHOJ
Residency Dates March 2nd ndash April 2nd 2015
Application Deadline February 2nd 2015
Proposals are invited for bdquoThe Undivided Mind‟ a four-week
international residency for artists whose work explores the
intersection of art and science
At first it may seem that the pairing of Art amp Science is an atypical
choice as the two fields and methods of practice have almost
universally been represented as diametric opposites of each other
However on closer examination the similarities between artists and
scientists far outweigh their stereotypical differences Both are
dedicated to research and to asking the big question- what is true
Why does it matter How can we move society forward Moreover
both the lab and the studio are spaces that famously encourage
open-ended enquiry and emphasis on process In tune with Khoj‟s
commitment to cultivate an environment that allows for
experimentation and innovation the Art amp Science residency will be
a step towards furthering the explorations of interdisciplinary
practitioners This is the second edition of a Khoj residency focusing
on Art + Science to know more about the first edition please
click bdquohere‟
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
The following India Alliance Fellows will be participating in the
project
(NOTE If an applicant wishes to connect with any of the following
researchers in advance of submitting their proposal please contact
the Khoj team at bdquoapplicationskhojworkshoporg‟ for an
introduction please do the same if you are a scientist and would like
take part in this project )
Dr Venkatasubramanian Ganesan National Institute of Mental
Health and Neurosciences (NIMHANS) Bangalore
Dr Pallab K Maulik The George Institute for Global Health New
Delhi
Dr Anurag Agarwal CSIR-Institute of Genomics amp Integrative
Biology (IGIB) New Delhi
Dr Tavpritesh Sethi All India Institute of Medical Sciences (AIIMS)
New Delhi
Dr Lolitika Mandal Indian Institute of Science Education and
Research (IISER) Mohali
Dr Urvakhsh MehtaNIMHANS Bangalore
Dr Sheetal Gandotra IGIB New Delhi
Visit Khoj website to find out more about the residency and the application process
Apply by
2 February 2016
India Alliance is pleased to announce its support for Art amp Science Project at Khoj International Artists Association New Delhi details of
which can be found below and on the Khoj website It promises to be a great platform for interdisciplinary dialogue and exchange
between scientists and artists and we encourage anyone interested to apply (artists) and get involved (scientists)
THEME
The theme of the 2016 edition of The Undivided Mind is bdquoHealth‟
Within this broader framework three curatorial frameworks or
modes for exploration are suggested Terrestrial Health refers to
that which is on or related to the earth This sub ndash theme suggests an
investigation into the physical health and structure of the body (both
human and animal) the environment the community and the
interrelations between these spheres Mental Health refers to that
which is of or relating to the mind This sub ndash theme focuses on a
psychological investigation of what constitutes Health of the mind
and raises questions about the bdquosocially‟ defined state of well-being
where issues‟ surrounding the legal rights and entitlement of
personhood for those living with a mental disorder is open for
debate Finally Extraterrestrial Health may refer to any object
being or idea beyond the planet Earth This sub ndash theme opens up a
space where the relationship between Earth and other planetary
bodies can be studied What does it mean for human existence when
sending human life forms to Mars is projected to take place by
2020 What are the long term effects and solution to space debris
if life projects out beyond Earth This sub ndash theme also invites
applicants to consider the abstract and metaphorical imaginings of
health in contemporary and future societies
6
Nobel Laureate Dr Harold Varmus recognized for his research on
retroviruses and the genetic basis of cancer gave a lecture on ldquoRecent
Developments in Cancer Researchrdquo at National Institute of Immunology
(NII) New Delhi an event co-organised by NII Wellcome TrustDBT
India Alliance and Department of Biotechnology Government of
India His lecture largely gave an overview of the recent
developments challenges and the future directions in the field of
cancer research which included the current research of his group in
this area
Dr Varmus who had spent time in Bareilly as a young medical
student described cancer as a complex disease that requires
innovative research and treatment strategies At the outset Dr Varmus
introduced the key questions that drive the cancer research field- Is
cancer one disease or many diseases What makes the cancer cell
grow so stably in such an inappropriate manner How does a normal
cell become a cancer cell Providing answers to these questions
formed the backdrop of Dr Varmus‟s lecture which drew from his
research work till date and other advances in the field
Dr Varmus entered the field of cancer research in 1970s as a
postdoctoral scientist in the laboratory of Dr John J Michael Bishop at
University of California San Francisco USA the same year National
Cancer Act was signed in the country Dr Bishop and Dr Varmus
together received the Nobel Prize in Medicine and Physiology in
1989 ldquofor their discovery of the cellular origins of retroviral
oncogenesrdquo During his lecture Dr Varmus confessed standing on the
shoulders of giants of retroviral and cancer research such as Dr
Peyton Rous Dr Harry Rubin and Dr Howard Temin to ask the question
of how retroviruses transformed cells and cause tumours This question
led him to look for genes that make a normal cell behave like a
cancer cell which initially involved studying cancer-causing RNA
virusesretroviruses in animals The retrovirus that played a lead role
in Dr Varmus and his colleague‟s work was the Rous Sarcoma Virus
(RSV) discovered by Dr Peyton Rous in 1911 which he showed caused
a type of cancer in chickens Dr Varmus and colleagues set out to
prove the hypothesis that retroviruses enter host cells and capture
normal genes in that cell by inserting their DNA converting them into
cancer-causing genes or oncogenes Dr Varmus and his group
employed various cellular chemical as well as genetic tools to
establish that retroviruses can indeed act as mutagens by inserting
their DNA in host cells and turning them into cancer cells After this his
group went on to identify the cancer-causing genes present in the
virus and subsequently discovered many new oncogenes v-Src (a
gene of RSV) being the first one Following these discoveries and
subsequently many others led to the belief that the genetic basis of
cancer is highly heterogeneous Dr Varmus told us that in order to
catalogue these complexities the Cancer Genome Atlas was
established in 2005 which till today serves as a collection of the
genetic mutations responsible for different cancers
Apart from the complexity and vastness of the cancer genome
other challenges in the field according to Dr Varmus are genetic
heterogeneity and evolution of tumours due to various environmental
factors such as exposure to UV pollution tobacco use and other
environmental carcinogens that are on the rise He used the example
of renal tumor evolution which illustrates Darwin‟s theory of ldquoevolution
of speciesrdquo to show that this rapidly changing genetic repertoire can
have significant impact on diagnosis therapeutic interventions and
prognosis Another issue of concern highlighted by Dr Varmus was the
absence of suitable drugs against many common targets for cancer
such as cancer-causing RAS genes and many transcription factors
which have been shown to contribute towards cancer formation Dr
Varmus opined that lack of understanding of the underlying
complexity of resistance to cancer therapies is another roadblock in
cancer treatment He was also strongly of the opinion that there are
not enough public health interventions to prevent cancer- this he felt
needs to go hand in hand with finding cure for cancer
Dr Varmus also offered solutions to these problems He suggested
that research needs to ldquolook beyond genes and focus on patterns and
pathwaysrdquo and physiological changes taking place in cancer cells He
shared his group‟s current interest in studying ldquooncogene addictionrdquo
which is based on the premise that some oncogenes not only give rise
to cancer but also maintain the cancerous state of the cells
Interpreting the downstream effects of these cancer genes on the
pathways could be employed as a strategy to attack multiple targets
by drugs in different cancers Even though he hailed the successes of
many commonly used and extremely efficacious anti-cancer drugs
such as Gleevec Gefitinib Erlotinib but in light of growing
complexity of the disease proposed the need for adopting more
innovative drug discovery and treatment approaches Continuing on
the topic of therapeutics Dr Varmus mentioned the recent advances in
immunotherapeutic approaches to treat cancer which would require
us to understand why the otherwise combative immune system does
not kill cancer cells He suggested that gaining understanding of these
immune check points and accordingly targeting them by antibody
inhibitors could serve as one more effective treatment strategy-
another project his research group has undertaken In addition to
these therapeutic approaches Dr Varmus very strongly asserted that
ldquonot everything we talk about cancer should be about cancer therapy
but also about preventionrdquo and that this disease ought to be on the
global health agenda
Dr Varmus very eloquently concluded his talk by stating that
ldquoconfronting cancer needs a balance between grasping its complexity
and seeking simple solutionsrdquo As expected he received many
questions from the audience after his lecture on the genetics and
biology of various cancers potential use of vaccines in cancer
treatment crosstalk of cancer with other diseases and many others to
which he responded with prudence and an underlying sense of
optimism
Prior to his lecture Dr Varmus over an hour meeting with 10 young
cancer researchers discussed their work This group included the
following Wellcome TrustDBT India Alliance Fellows - Dr Reety Arora
(ECF InStem Bangalore) Dr Anjali Bajpai (ECF IIT Kanpur) Dr
Bushra Ateeq (Int Fellow IIT Kanpur) Dr Kundan Sengupta (Int Fellow
IISER Pune) and Dr Sandeep Singh (Int Fellow NIBMG Kalyani) Dr
Varmus also sought information on the India Alliance Fellowships and
was impressed by its funding model and reach
LECTURE REPORT
Recent Developments in Cancer Research By Dr Harold Varmus Nobel Prize in Medicine and Physiology Weill Cornell Medical College USA
at
National Institute of Immunology New Delhi
16 November 2015
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
7
ASK THE SCIENTIST about
The Human Brain
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
This section will bring to you answers to those burning scientific questions that you always wanted to ask the guys in the white
coat For this issue we asked some of our Fellows to shed light on the various operations of the brain
How can we measure attention
DR SUPRATIM RAY Indian Institute of Science Bangalore
Intermediate Fellow
Attention can be of different types such as sustained (vigilance)
selective (focusing at one stimulus in the presence of distractors) or
alternating (involves switching) which can be measured using a
variety of cognitive tests (such as test of everyday attention (TEA) or
Posner cuing task) For example in a classical Posner task a subject
is repeatedly shown two stimuli and cued to attend to one of them
and instructed to respond to a change in the stimulus (say by
pressing a button) The cue could be valid (change occurs at the cued
stimulus say for 80 of the trials) invalid (change occurs at the
uncued stimulus) or neutral (ambiguous) Selection attention can be
measured by comparing the accuracy and the time taken to press
the button after stimulus change (called reaction time) for different
cue types
Different components of attention such as orienting towards a
location detecting a target or maintaining vigilance are carried out
by distinct brain areas in the prefrontal and parietal lobes and some
sub-cortical structures (such as superior colliculus) Overall
performance depends not only on how these areas perform but also
how they communicate with each other and on the levels of
neuromodulators such as norepinephrine
How can we sense smell Is it possible to live without this
sense of smell
DR NIXON ABRAHAM Indian Institutes of Science Education amp
Research (IISER) Pune
Intermediate Fellow
Once Dr Lewis Thomas (1913-1993) the poet and a philosopher of
medicine who also served as the dean of the medical schools at the
New York University and Yale was asked to select seven wonders of
the modern world Olfaction (olfactory receptor cell) was fifth in his
list How does the modern fifth wonder that brings us the smell of our
surroundings ndash the good and bad work
The process of making sense of smell start by binding the odor
molecules to the olfactory receptors located in the olfactory sensory
neurons (OSNs) in the nose This binding triggers a series of signal
amplification steps which lead to electrical spikes (so called action
potentials) in OSNs This olfactory information whose intensity is
encoded by varying the number of action potentials is then passed
onto the projection neurons named mitral and tufted cells in the
olfactory bulb These projection neurons whose excitatory actions
are controlled by various inhibitory neurons carry the olfactory
information to the higher centers in the brain so that we perceive the
smell of spicy tasty food and putrid garbage ndash the good and bad
from the environment
Continued
9
Brain waves
measured by EEG
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
What is really happening inside the brain of a Schizophrenia
patient Does it look any different from a normal brain
DR VENKATASUBRAMANIAN GANESAN NIMHANS Bengaluru
Intermediate Fellow
The brain of a schizophrenia patient is reduced in overall volume
with increase in the size of the ventricles (parts of the brain that
contain cerebrospinal fluid) however certain parts like hippocampus
superior temporal gyrus and prefrontal cortex are more affected
than others Using certain advanced brain imaging research studies
(for example high resolution structural MRI functional MRI Magnetic
Resonance Spectroscopy Positron Emission Tomography and Diffusion
Tensor Imaging and similar others) subtle brain abnormalities in
structure function neurochemical profile as well as brain connectivity
have been demonstrated in several brain regions in schizophrenia
patients It is important to note that these findings are obtained
from advanced research studies that have compared brains of a
Why are the mirror neurons called the Minds mirror What do
they reflect
DR URVAKHSH MEHTA National Institute of Mental Health amp
Neurosciences (NIMHANS) Bengaluru
Early Career Fellow
Mirror neurons are specialized nerve cells that discharge when
we perform actions as well as when we observe others perform the
same action Rizzolatti and colleagues accidentally discovered them
in monkeys These neurons also get vicariously activated when we
perceive emotional states of others This unique bdquoexperience sharing‟
property of mirror neurons perhaps enables us to decipher goals
intentions and emotions of others
In several of our daily social interactions we need to take
perspectives of others decipher deception share feelings and
empathize with others The mirror neuron system is an important
brain network that helps us peek into the minds of others and try to
understand people They translate sensory information (eg
observation of an action) into a motor template which is similar to
the format an observer himself uses to perform that very action This
motor template can help us interpret the goals and feelings
underlying observed actions The definitive demonstration of mirror
neurons in humans was as recent as 2010 There is also growing
evidence of a dysfunctional mirror neuron system in psychiatric
disorders like autism and schizophrenia It is a long and exciting
future ahead to decipher spatiotemporal regulatory and genetic
underpinnings of this unique neuronal network ndash this will possibly
help understand and treat social brain disorders better
Schizophrenia
What happens if we loose our sense of smell Loss of olfaction can
be caused by many reasons ranging from viral infections to
neurodegenerative disorders As our emotions and memories are
strongly related to olfaction the loss of this sense can lead to
depressed state and even affect bonding with family members Just
imagine sipping from your morning coffee without sensing it‟s aroma
- our taste could be badly affected by losing sense of smell The
ongoing research at the nasal stem cell level might provide clinical
solutions for the disorders of the olfactory sensory neurons to regain
this wonderful sense
group of schizophrenia patients with that of healthy subjects thus
these are group averaged findings that are currently not applicable
for diagnosing schizophrenia in an individual patient in a regular
clinical setting In ldquoa specific patientrdquo one may not be able to find
any striking abnormality in the physical appearance of the brain (ie
a routine CT or MRI brain scan may not be able to identify any
obvious aberration) Several ongoing research studies are in pursuit
to identify clinically useful biomarker to diagnose schizophrenia
Find out more about Dr Ganesan‟s research on schizophrenia here
Do you have a burning scientific
question
Send them to
publicengagementwellcomedbtorg
Mirror neuron activity in the brain both when the monkey grasps an object
and when it observes the experimenter grasping the object Mirror neurons
were first discovered by Rizzolatti and colleagues when they were studying
motor actions in macque monkeys
10
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
Nobel Laureate Dr Harold Varmus recognized for his research on
retroviruses and the genetic basis of cancer gave a lecture on ldquoRecent
Developments in Cancer Researchrdquo at National Institute of Immunology
(NII) New Delhi an event co-organised by NII Wellcome TrustDBT
India Alliance and Department of Biotechnology Government of
India His lecture largely gave an overview of the recent
developments challenges and the future directions in the field of
cancer research which included the current research of his group in
this area
Dr Varmus who had spent time in Bareilly as a young medical
student described cancer as a complex disease that requires
innovative research and treatment strategies At the outset Dr Varmus
introduced the key questions that drive the cancer research field- Is
cancer one disease or many diseases What makes the cancer cell
grow so stably in such an inappropriate manner How does a normal
cell become a cancer cell Providing answers to these questions
formed the backdrop of Dr Varmus‟s lecture which drew from his
research work till date and other advances in the field
Dr Varmus entered the field of cancer research in 1970s as a
postdoctoral scientist in the laboratory of Dr John J Michael Bishop at
University of California San Francisco USA the same year National
Cancer Act was signed in the country Dr Bishop and Dr Varmus
together received the Nobel Prize in Medicine and Physiology in
1989 ldquofor their discovery of the cellular origins of retroviral
oncogenesrdquo During his lecture Dr Varmus confessed standing on the
shoulders of giants of retroviral and cancer research such as Dr
Peyton Rous Dr Harry Rubin and Dr Howard Temin to ask the question
of how retroviruses transformed cells and cause tumours This question
led him to look for genes that make a normal cell behave like a
cancer cell which initially involved studying cancer-causing RNA
virusesretroviruses in animals The retrovirus that played a lead role
in Dr Varmus and his colleague‟s work was the Rous Sarcoma Virus
(RSV) discovered by Dr Peyton Rous in 1911 which he showed caused
a type of cancer in chickens Dr Varmus and colleagues set out to
prove the hypothesis that retroviruses enter host cells and capture
normal genes in that cell by inserting their DNA converting them into
cancer-causing genes or oncogenes Dr Varmus and his group
employed various cellular chemical as well as genetic tools to
establish that retroviruses can indeed act as mutagens by inserting
their DNA in host cells and turning them into cancer cells After this his
group went on to identify the cancer-causing genes present in the
virus and subsequently discovered many new oncogenes v-Src (a
gene of RSV) being the first one Following these discoveries and
subsequently many others led to the belief that the genetic basis of
cancer is highly heterogeneous Dr Varmus told us that in order to
catalogue these complexities the Cancer Genome Atlas was
established in 2005 which till today serves as a collection of the
genetic mutations responsible for different cancers
Apart from the complexity and vastness of the cancer genome
other challenges in the field according to Dr Varmus are genetic
heterogeneity and evolution of tumours due to various environmental
factors such as exposure to UV pollution tobacco use and other
environmental carcinogens that are on the rise He used the example
of renal tumor evolution which illustrates Darwin‟s theory of ldquoevolution
of speciesrdquo to show that this rapidly changing genetic repertoire can
have significant impact on diagnosis therapeutic interventions and
prognosis Another issue of concern highlighted by Dr Varmus was the
absence of suitable drugs against many common targets for cancer
such as cancer-causing RAS genes and many transcription factors
which have been shown to contribute towards cancer formation Dr
Varmus opined that lack of understanding of the underlying
complexity of resistance to cancer therapies is another roadblock in
cancer treatment He was also strongly of the opinion that there are
not enough public health interventions to prevent cancer- this he felt
needs to go hand in hand with finding cure for cancer
Dr Varmus also offered solutions to these problems He suggested
that research needs to ldquolook beyond genes and focus on patterns and
pathwaysrdquo and physiological changes taking place in cancer cells He
shared his group‟s current interest in studying ldquooncogene addictionrdquo
which is based on the premise that some oncogenes not only give rise
to cancer but also maintain the cancerous state of the cells
Interpreting the downstream effects of these cancer genes on the
pathways could be employed as a strategy to attack multiple targets
by drugs in different cancers Even though he hailed the successes of
many commonly used and extremely efficacious anti-cancer drugs
such as Gleevec Gefitinib Erlotinib but in light of growing
complexity of the disease proposed the need for adopting more
innovative drug discovery and treatment approaches Continuing on
the topic of therapeutics Dr Varmus mentioned the recent advances in
immunotherapeutic approaches to treat cancer which would require
us to understand why the otherwise combative immune system does
not kill cancer cells He suggested that gaining understanding of these
immune check points and accordingly targeting them by antibody
inhibitors could serve as one more effective treatment strategy-
another project his research group has undertaken In addition to
these therapeutic approaches Dr Varmus very strongly asserted that
ldquonot everything we talk about cancer should be about cancer therapy
but also about preventionrdquo and that this disease ought to be on the
global health agenda
Dr Varmus very eloquently concluded his talk by stating that
ldquoconfronting cancer needs a balance between grasping its complexity
and seeking simple solutionsrdquo As expected he received many
questions from the audience after his lecture on the genetics and
biology of various cancers potential use of vaccines in cancer
treatment crosstalk of cancer with other diseases and many others to
which he responded with prudence and an underlying sense of
optimism
Prior to his lecture Dr Varmus over an hour meeting with 10 young
cancer researchers discussed their work This group included the
following Wellcome TrustDBT India Alliance Fellows - Dr Reety Arora
(ECF InStem Bangalore) Dr Anjali Bajpai (ECF IIT Kanpur) Dr
Bushra Ateeq (Int Fellow IIT Kanpur) Dr Kundan Sengupta (Int Fellow
IISER Pune) and Dr Sandeep Singh (Int Fellow NIBMG Kalyani) Dr
Varmus also sought information on the India Alliance Fellowships and
was impressed by its funding model and reach
LECTURE REPORT
Recent Developments in Cancer Research By Dr Harold Varmus Nobel Prize in Medicine and Physiology Weill Cornell Medical College USA
at
National Institute of Immunology New Delhi
16 November 2015
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
7
ASK THE SCIENTIST about
The Human Brain
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
This section will bring to you answers to those burning scientific questions that you always wanted to ask the guys in the white
coat For this issue we asked some of our Fellows to shed light on the various operations of the brain
How can we measure attention
DR SUPRATIM RAY Indian Institute of Science Bangalore
Intermediate Fellow
Attention can be of different types such as sustained (vigilance)
selective (focusing at one stimulus in the presence of distractors) or
alternating (involves switching) which can be measured using a
variety of cognitive tests (such as test of everyday attention (TEA) or
Posner cuing task) For example in a classical Posner task a subject
is repeatedly shown two stimuli and cued to attend to one of them
and instructed to respond to a change in the stimulus (say by
pressing a button) The cue could be valid (change occurs at the cued
stimulus say for 80 of the trials) invalid (change occurs at the
uncued stimulus) or neutral (ambiguous) Selection attention can be
measured by comparing the accuracy and the time taken to press
the button after stimulus change (called reaction time) for different
cue types
Different components of attention such as orienting towards a
location detecting a target or maintaining vigilance are carried out
by distinct brain areas in the prefrontal and parietal lobes and some
sub-cortical structures (such as superior colliculus) Overall
performance depends not only on how these areas perform but also
how they communicate with each other and on the levels of
neuromodulators such as norepinephrine
How can we sense smell Is it possible to live without this
sense of smell
DR NIXON ABRAHAM Indian Institutes of Science Education amp
Research (IISER) Pune
Intermediate Fellow
Once Dr Lewis Thomas (1913-1993) the poet and a philosopher of
medicine who also served as the dean of the medical schools at the
New York University and Yale was asked to select seven wonders of
the modern world Olfaction (olfactory receptor cell) was fifth in his
list How does the modern fifth wonder that brings us the smell of our
surroundings ndash the good and bad work
The process of making sense of smell start by binding the odor
molecules to the olfactory receptors located in the olfactory sensory
neurons (OSNs) in the nose This binding triggers a series of signal
amplification steps which lead to electrical spikes (so called action
potentials) in OSNs This olfactory information whose intensity is
encoded by varying the number of action potentials is then passed
onto the projection neurons named mitral and tufted cells in the
olfactory bulb These projection neurons whose excitatory actions
are controlled by various inhibitory neurons carry the olfactory
information to the higher centers in the brain so that we perceive the
smell of spicy tasty food and putrid garbage ndash the good and bad
from the environment
Continued
9
Brain waves
measured by EEG
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
What is really happening inside the brain of a Schizophrenia
patient Does it look any different from a normal brain
DR VENKATASUBRAMANIAN GANESAN NIMHANS Bengaluru
Intermediate Fellow
The brain of a schizophrenia patient is reduced in overall volume
with increase in the size of the ventricles (parts of the brain that
contain cerebrospinal fluid) however certain parts like hippocampus
superior temporal gyrus and prefrontal cortex are more affected
than others Using certain advanced brain imaging research studies
(for example high resolution structural MRI functional MRI Magnetic
Resonance Spectroscopy Positron Emission Tomography and Diffusion
Tensor Imaging and similar others) subtle brain abnormalities in
structure function neurochemical profile as well as brain connectivity
have been demonstrated in several brain regions in schizophrenia
patients It is important to note that these findings are obtained
from advanced research studies that have compared brains of a
Why are the mirror neurons called the Minds mirror What do
they reflect
DR URVAKHSH MEHTA National Institute of Mental Health amp
Neurosciences (NIMHANS) Bengaluru
Early Career Fellow
Mirror neurons are specialized nerve cells that discharge when
we perform actions as well as when we observe others perform the
same action Rizzolatti and colleagues accidentally discovered them
in monkeys These neurons also get vicariously activated when we
perceive emotional states of others This unique bdquoexperience sharing‟
property of mirror neurons perhaps enables us to decipher goals
intentions and emotions of others
In several of our daily social interactions we need to take
perspectives of others decipher deception share feelings and
empathize with others The mirror neuron system is an important
brain network that helps us peek into the minds of others and try to
understand people They translate sensory information (eg
observation of an action) into a motor template which is similar to
the format an observer himself uses to perform that very action This
motor template can help us interpret the goals and feelings
underlying observed actions The definitive demonstration of mirror
neurons in humans was as recent as 2010 There is also growing
evidence of a dysfunctional mirror neuron system in psychiatric
disorders like autism and schizophrenia It is a long and exciting
future ahead to decipher spatiotemporal regulatory and genetic
underpinnings of this unique neuronal network ndash this will possibly
help understand and treat social brain disorders better
Schizophrenia
What happens if we loose our sense of smell Loss of olfaction can
be caused by many reasons ranging from viral infections to
neurodegenerative disorders As our emotions and memories are
strongly related to olfaction the loss of this sense can lead to
depressed state and even affect bonding with family members Just
imagine sipping from your morning coffee without sensing it‟s aroma
- our taste could be badly affected by losing sense of smell The
ongoing research at the nasal stem cell level might provide clinical
solutions for the disorders of the olfactory sensory neurons to regain
this wonderful sense
group of schizophrenia patients with that of healthy subjects thus
these are group averaged findings that are currently not applicable
for diagnosing schizophrenia in an individual patient in a regular
clinical setting In ldquoa specific patientrdquo one may not be able to find
any striking abnormality in the physical appearance of the brain (ie
a routine CT or MRI brain scan may not be able to identify any
obvious aberration) Several ongoing research studies are in pursuit
to identify clinically useful biomarker to diagnose schizophrenia
Find out more about Dr Ganesan‟s research on schizophrenia here
Do you have a burning scientific
question
Send them to
publicengagementwellcomedbtorg
Mirror neuron activity in the brain both when the monkey grasps an object
and when it observes the experimenter grasping the object Mirror neurons
were first discovered by Rizzolatti and colleagues when they were studying
motor actions in macque monkeys
10
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
ASK THE SCIENTIST about
The Human Brain
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
This section will bring to you answers to those burning scientific questions that you always wanted to ask the guys in the white
coat For this issue we asked some of our Fellows to shed light on the various operations of the brain
How can we measure attention
DR SUPRATIM RAY Indian Institute of Science Bangalore
Intermediate Fellow
Attention can be of different types such as sustained (vigilance)
selective (focusing at one stimulus in the presence of distractors) or
alternating (involves switching) which can be measured using a
variety of cognitive tests (such as test of everyday attention (TEA) or
Posner cuing task) For example in a classical Posner task a subject
is repeatedly shown two stimuli and cued to attend to one of them
and instructed to respond to a change in the stimulus (say by
pressing a button) The cue could be valid (change occurs at the cued
stimulus say for 80 of the trials) invalid (change occurs at the
uncued stimulus) or neutral (ambiguous) Selection attention can be
measured by comparing the accuracy and the time taken to press
the button after stimulus change (called reaction time) for different
cue types
Different components of attention such as orienting towards a
location detecting a target or maintaining vigilance are carried out
by distinct brain areas in the prefrontal and parietal lobes and some
sub-cortical structures (such as superior colliculus) Overall
performance depends not only on how these areas perform but also
how they communicate with each other and on the levels of
neuromodulators such as norepinephrine
How can we sense smell Is it possible to live without this
sense of smell
DR NIXON ABRAHAM Indian Institutes of Science Education amp
Research (IISER) Pune
Intermediate Fellow
Once Dr Lewis Thomas (1913-1993) the poet and a philosopher of
medicine who also served as the dean of the medical schools at the
New York University and Yale was asked to select seven wonders of
the modern world Olfaction (olfactory receptor cell) was fifth in his
list How does the modern fifth wonder that brings us the smell of our
surroundings ndash the good and bad work
The process of making sense of smell start by binding the odor
molecules to the olfactory receptors located in the olfactory sensory
neurons (OSNs) in the nose This binding triggers a series of signal
amplification steps which lead to electrical spikes (so called action
potentials) in OSNs This olfactory information whose intensity is
encoded by varying the number of action potentials is then passed
onto the projection neurons named mitral and tufted cells in the
olfactory bulb These projection neurons whose excitatory actions
are controlled by various inhibitory neurons carry the olfactory
information to the higher centers in the brain so that we perceive the
smell of spicy tasty food and putrid garbage ndash the good and bad
from the environment
Continued
9
Brain waves
measured by EEG
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
What is really happening inside the brain of a Schizophrenia
patient Does it look any different from a normal brain
DR VENKATASUBRAMANIAN GANESAN NIMHANS Bengaluru
Intermediate Fellow
The brain of a schizophrenia patient is reduced in overall volume
with increase in the size of the ventricles (parts of the brain that
contain cerebrospinal fluid) however certain parts like hippocampus
superior temporal gyrus and prefrontal cortex are more affected
than others Using certain advanced brain imaging research studies
(for example high resolution structural MRI functional MRI Magnetic
Resonance Spectroscopy Positron Emission Tomography and Diffusion
Tensor Imaging and similar others) subtle brain abnormalities in
structure function neurochemical profile as well as brain connectivity
have been demonstrated in several brain regions in schizophrenia
patients It is important to note that these findings are obtained
from advanced research studies that have compared brains of a
Why are the mirror neurons called the Minds mirror What do
they reflect
DR URVAKHSH MEHTA National Institute of Mental Health amp
Neurosciences (NIMHANS) Bengaluru
Early Career Fellow
Mirror neurons are specialized nerve cells that discharge when
we perform actions as well as when we observe others perform the
same action Rizzolatti and colleagues accidentally discovered them
in monkeys These neurons also get vicariously activated when we
perceive emotional states of others This unique bdquoexperience sharing‟
property of mirror neurons perhaps enables us to decipher goals
intentions and emotions of others
In several of our daily social interactions we need to take
perspectives of others decipher deception share feelings and
empathize with others The mirror neuron system is an important
brain network that helps us peek into the minds of others and try to
understand people They translate sensory information (eg
observation of an action) into a motor template which is similar to
the format an observer himself uses to perform that very action This
motor template can help us interpret the goals and feelings
underlying observed actions The definitive demonstration of mirror
neurons in humans was as recent as 2010 There is also growing
evidence of a dysfunctional mirror neuron system in psychiatric
disorders like autism and schizophrenia It is a long and exciting
future ahead to decipher spatiotemporal regulatory and genetic
underpinnings of this unique neuronal network ndash this will possibly
help understand and treat social brain disorders better
Schizophrenia
What happens if we loose our sense of smell Loss of olfaction can
be caused by many reasons ranging from viral infections to
neurodegenerative disorders As our emotions and memories are
strongly related to olfaction the loss of this sense can lead to
depressed state and even affect bonding with family members Just
imagine sipping from your morning coffee without sensing it‟s aroma
- our taste could be badly affected by losing sense of smell The
ongoing research at the nasal stem cell level might provide clinical
solutions for the disorders of the olfactory sensory neurons to regain
this wonderful sense
group of schizophrenia patients with that of healthy subjects thus
these are group averaged findings that are currently not applicable
for diagnosing schizophrenia in an individual patient in a regular
clinical setting In ldquoa specific patientrdquo one may not be able to find
any striking abnormality in the physical appearance of the brain (ie
a routine CT or MRI brain scan may not be able to identify any
obvious aberration) Several ongoing research studies are in pursuit
to identify clinically useful biomarker to diagnose schizophrenia
Find out more about Dr Ganesan‟s research on schizophrenia here
Do you have a burning scientific
question
Send them to
publicengagementwellcomedbtorg
Mirror neuron activity in the brain both when the monkey grasps an object
and when it observes the experimenter grasping the object Mirror neurons
were first discovered by Rizzolatti and colleagues when they were studying
motor actions in macque monkeys
10
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
INDIA ALLIANCE
PUBLIC ENGAGEMENT CORNER
What is really happening inside the brain of a Schizophrenia
patient Does it look any different from a normal brain
DR VENKATASUBRAMANIAN GANESAN NIMHANS Bengaluru
Intermediate Fellow
The brain of a schizophrenia patient is reduced in overall volume
with increase in the size of the ventricles (parts of the brain that
contain cerebrospinal fluid) however certain parts like hippocampus
superior temporal gyrus and prefrontal cortex are more affected
than others Using certain advanced brain imaging research studies
(for example high resolution structural MRI functional MRI Magnetic
Resonance Spectroscopy Positron Emission Tomography and Diffusion
Tensor Imaging and similar others) subtle brain abnormalities in
structure function neurochemical profile as well as brain connectivity
have been demonstrated in several brain regions in schizophrenia
patients It is important to note that these findings are obtained
from advanced research studies that have compared brains of a
Why are the mirror neurons called the Minds mirror What do
they reflect
DR URVAKHSH MEHTA National Institute of Mental Health amp
Neurosciences (NIMHANS) Bengaluru
Early Career Fellow
Mirror neurons are specialized nerve cells that discharge when
we perform actions as well as when we observe others perform the
same action Rizzolatti and colleagues accidentally discovered them
in monkeys These neurons also get vicariously activated when we
perceive emotional states of others This unique bdquoexperience sharing‟
property of mirror neurons perhaps enables us to decipher goals
intentions and emotions of others
In several of our daily social interactions we need to take
perspectives of others decipher deception share feelings and
empathize with others The mirror neuron system is an important
brain network that helps us peek into the minds of others and try to
understand people They translate sensory information (eg
observation of an action) into a motor template which is similar to
the format an observer himself uses to perform that very action This
motor template can help us interpret the goals and feelings
underlying observed actions The definitive demonstration of mirror
neurons in humans was as recent as 2010 There is also growing
evidence of a dysfunctional mirror neuron system in psychiatric
disorders like autism and schizophrenia It is a long and exciting
future ahead to decipher spatiotemporal regulatory and genetic
underpinnings of this unique neuronal network ndash this will possibly
help understand and treat social brain disorders better
Schizophrenia
What happens if we loose our sense of smell Loss of olfaction can
be caused by many reasons ranging from viral infections to
neurodegenerative disorders As our emotions and memories are
strongly related to olfaction the loss of this sense can lead to
depressed state and even affect bonding with family members Just
imagine sipping from your morning coffee without sensing it‟s aroma
- our taste could be badly affected by losing sense of smell The
ongoing research at the nasal stem cell level might provide clinical
solutions for the disorders of the olfactory sensory neurons to regain
this wonderful sense
group of schizophrenia patients with that of healthy subjects thus
these are group averaged findings that are currently not applicable
for diagnosing schizophrenia in an individual patient in a regular
clinical setting In ldquoa specific patientrdquo one may not be able to find
any striking abnormality in the physical appearance of the brain (ie
a routine CT or MRI brain scan may not be able to identify any
obvious aberration) Several ongoing research studies are in pursuit
to identify clinically useful biomarker to diagnose schizophrenia
Find out more about Dr Ganesan‟s research on schizophrenia here
Do you have a burning scientific
question
Send them to
publicengagementwellcomedbtorg
Mirror neuron activity in the brain both when the monkey grasps an object
and when it observes the experimenter grasping the object Mirror neurons
were first discovered by Rizzolatti and colleagues when they were studying
motor actions in macque monkeys
10
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
INDIA ALLIANCE FELLOW
DR ROOP MALIK Senior Fellow TIFR Mumbai
Dr Roop Malik is a biophysicist based at Tata Institute of Fundamental Research Mumbai Dr Malikrsquos research focuses on nanoscale molecular motor proteins that transport material such as virus mitochondria endosomes etc inside living cells
What is your research group working on and what impact do you
hope it will have
We try to understand how the living cell achieves an organization that
is well defined yet dynamic Most of the components within a cell
have a lipid membrane boundary This boundary is fairly well
defined and visible under a microscope yet it undergoes constant
deformation to allow exchange of material between different parts
of a cell Motor proteins attach to the lipid membrane boundary and
act as transporters physically carrying cellular material from one
membrane to another in the form of a vesicular cargo How do the
motors and lipids collaborate to decide the fate of the cargo
We work on two such cargoes -- the Phagosome (may enclose
pathogens) and the Lipid droplet (encloses fat) We hope that our
research will help understand how pathogens infect us by modifying
the lipid membrane and the motors attached to it We also
investigate how fat stored inside the Lipid droplets in our liver is
circulated to different parts of the body There is a tremendous
change in the amount of fat stored in liver at every feedingfasting
cycle This is visible in the form of Lipid droplet accumulation in rat
liver sections after fasting How does the liver handle this flux of fat
What special mechanisms are required Answering these questions
may help understand the progression of fatty liver diseases
What inspired you to become a scientist
To be frank nothing in particular It was an acquired taste I started
doing experiments and gradually realised I was doing well I like the
planning that is involved in investigating the unknown and the
surprises that crop up inevitably These force you to change your
well-laid plans Thats when it gets really exciting
What role canshould scientists play in todays India
I think there is a lot of scientific freedom in India Granting agencies
are not as hawkish as in the western world This freedom is an
opportunity to do what drives you There are many young scientists in
the country who are keen to share ideas and resources We should
focus on solving difficult problems by taking advantage of this
environment If we do good science it will inspire the public
The primary job of a scientist is to do science and to do it well
Beyond that we also need to think about how science can be
propagated We have to mentor students and give them the
confidence and enthusiasm so that they go on to do better science
than we did We also have to communicate our science to common
man and facilitate them We must impress on students (and also on
their parents) that they should not look at studying Physics or Biology
or Chemistry in isolation Those who want to take up science as a
career should also understand that they must learn to deal with many
failures before something succeeds
How has Wellcome TrustDBT India Alliance Fellowship helped
you and your research (your IA experience)
I have been a Senior fellow with Wellcome Trust (UK) and then with
Wellcome Trust DBT India Alliance since 2006 The rigorous selection
process helped me fine-tune the questions that I wanted to ask The
subsequent evaluations and annual meetings helped in keeping my
research on track Last but not the least we were given a lot of
freedom in executing our science I thank the India Alliance for this
degree of trust in their Fellows This has helped me to focus on the
science
What keeps you going every day
Coffee tea and the excitement of planning and executing science
with my colleagues Regular breaks to get out into the hills for some
adventure
Find out more about
Dr Roop Malik‟s
work on motor
proteins on his
website In order to
make his research
understandable to
a wide range of
people he has put
up translation of his
research summary
in Hindi and
Marathi in addition
to Engalish on his
website
11
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
A Sponge Against a Sword An RNA-binding protein Prevents Chronic Inflammation and Cancer
By Dr Partho Sarothi Ray Intermediate Fellow
Anyone who has had a bruise is familiar with the redness
swelling warmth and pain that mark the site of the injury This
response known as inflammation has been recognized since ancient
times and its hallmarks were first described by the Greek physician
Galen 2000 years ago The process which is often set in motion by
specialized cells of the immune system occurs whenever tissue is
infected or damaged as for example when you have a pimple or
more seriously suffer a heart attack The latter condition is called
sterile inflammation which happens in absence of infection by a
pathogen and when it goes awry it contributes to a wide range of
seemingly unrelated diseases from Alzheimer‟s disease to diabetes to
cancer
Inflammation is the primary protective response of the body to any
infection or injury However as our common experience shows the
inflammation after being triggered goes away of its own a process
known as resolution However in certain cases the inflammation fails
to resolve and it‟s continuation known as chronic inflammation acts as
an underlying contributor to virtually every chronic disease- a list that
besides obvious culprits such as rheumatoid arthritis and
Crohn‟s disease includes diabetes and depression along with major
killers such as heart disease and stroke and especially cancer
Therefore inflammation is a double-edged sword it protects our
body but can also harm it when it occurs in an uncontrolled manner
Over the past decade and half this role of inflammation has come
under intense scrutiny and many research groups throughout the
world are attempting to discover the underlying mechanisms which
regulate the onset and resolution of inflammation
Connection between Cancer and Inflammation
The connection between cancer and inflammation was recognized a
long time ago In fact in 1863 the renowned German pathologist
Rudolf Virchow found the presence of white blood cells cells which
mediate inflammation in tumors In 1986 the cancer biologist Harold
Dvorak of Harvard Medical School remarked that tumors are
wounds that do not heal However it is only over the last two
decades that the connections between inflammation and cancer have
transformed our understanding of how cancers develop This
transformation recognizes that the chronic inflammatory state serves
as a key mediator of the middle stages of tumor development
Cancer begins with a series of genetic changes that prompt a group
of cells to proliferate and then invade surrounding tissue the point at
which true malignancy begins Eventually some tumor cells may break
off and establish new growths (metastases) at distant sites This has
been understood for a long time But cancer biologists and
immunologists have begun to realize that the progression from
diseased tissue to full-blown invasive cancer often requires cells that
normally participate in inflammation to be diverted to the pre-
malignant tissue where they are hijacked to become co-conspirators
that aid and abet carcinogenesis As described by researchers
genetic damage is the match that lights the fire and inflammation
is the fuel that feeds it Therefore the aim of our lab is to understand
the molecular processes and mechanisms that normally prevent chronic
inflammation and thereby prevent the transition from a pre-malignant
stage to a full-blown cancer Hopefully this understanding will allow in
not-so-distant future to detect and treat cancers at the pre-malignant
stage which will make cancer treatment much easier and affordable
In addition to that this understanding will possibly be helpful in the
treatment of all chronic inflammatory diseases as the basic cellular
mechanisms underlying chronic inflammation are thought to be the
same in all cases
Inflammation in cells
At the cellular level inflammation involves two types of cells the
cells of the tissue or organ that is injured that is the inflamed cells
and the cells that mediate the inflammation that is the inflammatory
cells The latter consist mainly of cells that are originally in the blood
such as monocytes and neutrophils which migrate to the site of the
inflammation and literally eat up (phagocytose) the infecting
microorganisms or the injured cells In many cases there are
monocytes present within the inflamed tissue itself called
macrophages or big eaters which form the first line of attack on the
invading pathogen or damaged tissue Now both the inflamed cells
and the inflammatory cells secrete special signalling chemicals called
cytokines which attract more inflammatory cells to the site of the
inflammation Together with the cytokines the inflammatory cells (the
macrophages and neutrophils) also produce a variety of other factors
that allow the cells to move through the wall of the blood vessels and
then into the tissue where they attack engulf and destroy the
invading pathogen or the damaged cells It is obvious that many of
these factors such as reactive oxygen species (ROS)
metalloproteases interleukins like IL6 and blood vessel growth factors
like VEGF are toxic and if continued to be produced will damage
the healthy tissue as well That is why the production of both the
cytokines which attract these cells to the site of inflammation and
these factors which cause the death and destruction of the pathogens
ceases when the cause of the inflammation is removed and allows the
inflammation to resolve Failure to stop the production of these
inflammatory factors therefore leads to chronic inflammation and the
chronic inflammatory diseases The inflammatory factors cytokines
and others are produced by genes which are called pro-
inflammatory genes Therefore the expression of these genes that is
the production of proteins from the genes have to be tightly
regulated both in space and time
12
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
A Sponge Against a Sword By Dr Partho Sarothi Ray
They should express as long as the cause of the inflammation is there
and at the site of inflammation only and then stop to allow the
resolution of inflammation Gene expression is regulated in many
ways and of particular importance in the case of pro-inflammatory
genes is the regulation of protein synthesis what is called as
translation Our lab therefore studies the regulation of translation
of pro-inflammatory genes and attempts to understand how such
regulation might fail under certain circumstances which could lead
to sustained expression of pro-inflammatory genes giving rise to
chronic inflammation
The process of translation involves the binding of various proteins
called translation initiation factors to the messenger RNA (mRNA)
which ultimately recruits the mRNA into the translation factory the
ribosome to synthesize the protein encoded by that particular mRNA
This process is regulated mainly by two types of molecules a set of
proteins called RNA-binding proteins and a set of small RNAs called
microRNAs The concentration of both these proteins and microRNAs in
cells and how they function will therefore determine how translation
is regulated The concentration of many of these proteins and
microRNAs are known to change in chronic inflammatory conditions
and cancers thereby affecting the regulation of proinflammatory
genes and ultimately the process of inflammation resolution Our lab
therefore studies the cross-talk between these RNA-binding proteins
and microRNAs to understand their role in the regulation of pro-
inflammatory genes
Recently our work has focused on the regulation of translation of a
particular pro-inflammatory gene called Programmed Cell Death 4 or
PDCD4 This gene plays a crucial role in preventing chronic
inflammation from turning into cancer It is produced by cells when
they are inflamed but then it prevents the uncontrolled multiplication
of these cells to avert the transition to cancer Therefore it acts as a
tumor-suppressor gene It has been found that it is absent or fails to
function in various cancers One major reason it is absent in many
cancers is that its translation is stopped by a microRNA called miR-
21 This microRNA is well known to be highly present in a variety of
cancers and therefore acts as an oncogene This type of microRNAs
which are highly expressed in tumors and prevent the expression of
tumor-suppressor genes are therefore called as oncomiRs
Interestingly we found that an RNA-binding protein known as HuR
can counteract the effect of miR-21 and thereby prevent the
concentration of PDCD4 from going down This means that in a
condition such as a chronic inflammatory state when miR-21 level is
high then high level of HuR can prevent the stoppage in the
production of PDCD4 and thereby help in preventing the transition to
malignancy Now how do cells achieve the high level of HuR
Interestingly we found that under inflammatory conditions cells just
dont produce more HuR rather they transfer the HuR which is
normally present within the nucleus of cells into the cytoplasm where
translation actually happens and where it counteracts the effect of
miR-21
Now when we tried to find the mechanism by which HuR counteracts
miR-21 we found a surprising new phenomenon HuR on one hand
binds to the mRNA of PDCD4 and prevents the binding of miR-21 On
the other hand it directly binds to miR-21 and prevents its interaction
with the PDCD4 mRNA These RNA-binding proteins are known to bind
to mRNAs but their binding to microRNAs was not well known
Therefore HuRs ability to bind to and sequester miR-21 and
preventing its repressive action on PDCD4 translation suggests a
novel way in which HuR can function like a microRNA sponge (Fig 1)
This microRNA sponging function of HuR is therefore a mechanism
which will prevent the level of PDCD4 from going down in
inflammatory conditions and thereby prevent the uncontrolled cell
division which is the hallmark of the transition from chronic
inflammation to cancer This novel function has been described in a
paper from our lab which was published in the journal Oncogene
(Poria DK et al Oncogene 2015) This phenomenon now tells us that
when genetic mutations or some other stress might increase the level
of miR-21 and thereby induce a pre-malignant condition HuR will
move out from the cell nucleus into the cytoplasm sponge up the miR-
21 and prevent the level of tumor suppressors like PDCD4 from going
down This will be a major way in which the cells will be prevented
from transitioning from the pre-malignant to the malignant condition
and thereby prevent carcinogenesis
Fig 1 The microRNA Sponge HuR is a RNA binding protein which is normally present within the
nucleus of cells When the cells are exposed to an inflammatory stimulus HuR moves out from
the nucleus to the cytoplasm and binds to both the PDCD4 mRNA and to miR-21 acting as a
ldquomiRNA spongerdquo
These exciting observations tell us quite a few things about how
cells prevent the transition from chronic inflammation to cancer
Moreover they tell us what might contribute to this transition If HuR
fails to sponge miR-21 because of defects in HuR production or
translocation to the cytoplasm then miR-21 would suppress the
translation of PDCD4 and other tumor suppressor genes like PDCD4
and thereby contribute to the development of cancer On the other
hand it also tells us that in conditions where miR-21 is high some
therapeutic agent which will cause the translocation of HuR to the
cytoplasm and sponging of miR-21 might prevent its action and
thereby prevent the transition to malignancy Therefore the sponge
of HuR might be used to fight the double-edged sword of chronic
inflammation and cancer
Discovery of such processes that regulate inflammation improves
our understanding of the process of chronic inflammation and its role
in cancer development This will allow the development of anti-
inflammatory agents as part of anti-cancer therapy Anti-
inflammatory cancer therapy will prevent premalignant cells from
turning fully cancerous or impede an existing tumor from spreading to
distant sites in the body thereby making it much easier to detect
treat and cure cancer
DK Poria A Guha I Nandi and PS Ray RNA-binding protein HuR
sequesters microRNA-21 to prevent translation repression of
proinflammatory tumor suppressor gene programmed cell death 4
Oncogene 2015
13
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
INDIA ALLIANCE STAFF CORNER
DR SUJATHA REDDY Grants Adviser
Dr Sujatha Reddy joined the grants team in 2013 after finishing her
Postdoc stint at CCMB Hyderabad Sujatha has been involved with
many activities at India Alliance and is currently looking after India
Alliance‟s Grants Management System IASys along with her grant
advising duties
What is your background
I am from Hyderabad and I hold a PhD in Genetics My postdoc was
in Tissue Engineering and my second postdoc was to study the
epigenetics of adult neurogenesis I joined India Alliance in 2013
after spending a considerable amount of time at the Centre for
Cellular and Molecular Biology Hyderabad
Tell us about your India Alliance journey so far
Like any other researcher I too was occupied with my bench work and
have my share of experience of applying for funding submitting
progress reports expecting fund release etc Moving into science
administration was a carefully thought-out decision and I was well
aware that I would no longer wake up anxiously to look at the Ct
values of my overnight run Real time PCR or the growth of my cultures
Nevertheless at IA I get to read science across the spectrum which
was otherwise restricted to my focus area I certainly feel that
scientific training and experience have been very handy at almost
every aspect of my job profile as bdquoGrants Adviser‟ at IA as we need
to understand projects and related requirements have knowledge of
ethical issues and understanding of the policies and liaise with
eminent international experts Many a times the experience of being
a researcher has helped me to closely comprehend the issues faced
by candidates and Fellows
As a grants adviser I get to facilitate important processes of grants
management provide the necessary support to candidates and
contribute to problem solving at several instances Working at IA has
not only helped me hone my existing set of skills but also develop
several new ones Some of the important skills that the job
continuously teaches are multitasking prioritizing and time
management With six rounds of competitions launched each year
and several existing Fellowships awardees to manage and other
crucial responsibilities within the organization the grants advisers
handle multiple tasks at any given time point Since all the activities
are time bound and require high levels of attention and commitment
the experience has substantially contributed to develop my abilities to
simultaneously perform multiple duties with efficiency
The culture of Team work at IA is yet another thing which I feel good
about The grants team comprises of people from different specialties
and the office has been a great place for knowledge exchange and
some interesting discussions Each member has unique expertise and
experience thus bringing in multiple outlooks and varied views on
every aspect during our discussions As a team we share
responsibilities and support each other on an everyday basis which
has grounded a healthy atmosphere within the organization
Being a grants adviser with IA has not only given me a rich
experience to manage grants along the lines of international
standards but also benefit immensely from the experience which came
with varied responsibilities that I was entrusted with The job also
requires us to provide necessary guidance to candidates and timely
support to Fellows which I personally have a liking too as I consider it
as a unique approach to help researchers towards their effort to
progress further In this regard I am happy to have several good
memories to cherish at IA I would say that managing science from the
other side of the bench by facilitating funding process is indeed
interesting and more so if one has the fervor to contribute in some
way to the growth of science
When not busy on the job what do you enjoy doing
I enjoy music of all kinds and I grew up listening to MS
Subbalakshmi and also the melodies of the 70‟s and 80‟s My mother
was a Veena teacher and I learnt Carnatic music as a child I enjoy
singing light classical and bhajans I find a lot of pleasure in painting
mostly seascapes and landscapes with acrylic medium Going on a
holiday with my family is also something I always look forward to
Who inspires you (living or dead)
Several people have been a source of inspiration for different
reasons My father however remains as one of the important
individuals to have inspired me enormously He was a self-made man
with high moral standards and had touched several lives with his
benevolence Quite often I recollect his words and ways of living In
the recent times I found Nick Vujicic to be highly inspiring His
confidence and determination are simply amazing
16
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
OTHER EVENTS
FIRST FOLDSCOPE WORKSHOP IN INDIA
Stanford researchers urged Indian students to bdquolook at the world more closely‟ at the first Foldscope
Workshop held in New Delhi
Stanford University based Assistant Professor Dr Manu Prakash and
his team conducted the first one-day Foldscope workshop in India at
Sri Venkateshwara College which was followed by a Public Lecture
by Manu at Gargi College in New Delhi on 16th December 2015 This
workshop was jointly organised by Department of Biotechnology
(DBT) Government of India and Stanford University USA and was
part of DBT‟s celebratory events leading up to February 2016 that
marks 30 years since its foundation
Manu‟s wish to bdquomake the world a more curious place‟ along with his
deep-rooted interest in providing solutions for global health problems
led him to develop the $1 microscope dubbed Foldscope along with
his PhD student Jim Cybulski Foldscope is an origami based print and
fold paper microscope with magnification capabilities of up to 2000
times and weighs about 8 grams which makes it one of the lightest
and the cheapest basic field microscope available today One can
explore the biodiversity around or the bdquomicrocosmos‟ as Manu likes to
refer to it with this scope by simply attaching it to a camera phone A
typical Foldscope kit contains a sheet of foldable paper lens an LED
light and instructions During the morning session of the workshop
Manu and his team guided groups of students from various colleges
of Delhi University on how to assemble and use this paper microscope
to view samples on a slide In the second half of the workshop
students were encouraged to go outside explore and pick up samples
to observe under the Foldscope they had assembled and the best
image was given a prize and microcertificate which as the name
suggests could only be viewed under the Foldscope
Apart from serving as an ideal tool to educate students about
microscopes and their use to view the diverse bdquomicrocosmos‟ around
them Manu and his group have developed different Foldscopes to
diagnose different diseases The Foldscope can have different
imaging capabilities depending on the light source and lens which
includes bright-field reflected light dark-field polarisation
fluorescence and projection microscopy The examples of these
imaging capabilities can be seen online where Foldscope users from
around the world have uploaded their images
Manu‟s public lecture at Gargi College after the workshop lucidly
summarised his scientific work and journey inspiration behind the
Foldscope and his other research endeavours In his talk he shared
five lessons with the students which were learn to make original
observations value of stupidity in science find your own taste in
science importance of frugal science and amoeba (a pun on
elephant) in the room- the microcosmos These lessons were shared in
form of Manu‟s own experiences in the lab and the field For instance
he recounted how his interest in entomology as a kid led him to
develop a very simple and cost-effective assay which could be used
to genetically identify mosquitoes The data from this assay he hopes
can be useful for developing therapeutic tools against malaria and
other infectious diseases Manu stressed on the importance of doing
frugal science his favourite of the five lessons and its deep impact on
the global community Apart from drawing in from his own work on
the Foldscope and other projects he further supported the case of
frugal science by giving examples of other successful models- one
such was that of an American startup company Tribogenics that
developed a portable X-ray source from scotch tape Manu opined
that frugal science is not merely about bringing the costs down but
intellectually it is about exploring completely different approaches of
achieving what we set out to achieve Throughout his talk Manu
repeatedly urged the students to make their own observations and
not just rely on books to seek answers for their scientific curiosities
Manu concluded his lecture by saying ldquoit is not just for the scientists to
know the world curiosity needs to be nurtured and kept aliverdquo
In the QampA session Manu enthusiastically answered questions related
to Foldscope applications limitations effectiveness in controlling
disease outbreaks in a country like India it‟s availability in a store
and many others Foldscopes are not available commercially yet but
Manu and his group have dispatched 10000 Foldscopes to interested
individuals in 130 different countries in the hope that this citizen
science initiative will help us in gaining a much wider understanding of
the world around us The active participation and questioning by the
students at the workshop and lecture clearly suggests the need and
importance of such workshops and experiences in igniting interest in
scientific explorations at a very young age One student at the
workshop remarked ldquothis is has been my favourite kind of classroomrdquo
a sentiment shared by many students both young and old at this
event
Following the Delhi event Manu and his group conducted two other
workshops at Guwahati and Kaziranga which were facilitated by
DBT The novel findings of the microcosmos by the new users of the
Foldscope in India will be uploaded here
8
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
OTHER EVENTS
Trick or Treat is a year long project of discovery and synthesis of diverse practice and practitioners of healthcare systems
in India Sweeping through urban and rural contexts as well as researching a wide spectrum of healing approaches the
project pitches the use of digital art and techniques to create various public engagement experiences
The intention of the project is to raise an awareness and engagement with the plurality of health-related experiences in
the country with intended audiences from the public and scientific community Some of the key media outputs from the
project include a microsite a publication a workshopseminar a performance and a pop-up exhibition
If you would like to know more about Trick or Treat project and their upcoming Seminar amp Workshop at British Council
click here
ldquobdquoTabiyat Medicine and Healing in India‟ examines the history and contemporary practice of sustaining human health
in one of the world‟s great civilisations The exhibition will feature dazzling antiquities and modern vernacular art in an
aesthetically seductive intellectually rich mix of art science history and the ordinary made extraordinary
Find out more about Medicine Corner and this Exhibition here
rdquo
rdquo
ldquo
17
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph
Please send your feedback suggestions and contributions to publicengagementwellcomedbtorg
Follow us on
18
Images in this issue
Credit S Gschmeissner K Hodivala-Dilke amp M Stone Wellcome Images
Blood vessel in a melanoma Scanning electron micrograph
Credit Annie Cavanagh Wellcome Images
Breast cancer cells A cluster of breast cancer cells showing visual evidence of
programmed cell death (apoptosis) Scanning electron micrograph