GLOBAL ENGAGE’S 4TH PLANT GENOMICS GENE EDITING ASIA CONGRESS€¦ · · 2017-10-22PLANT GENOMICS & GENE EDITING ASIA CONGRESS GLOBAL ENGAGE’S 4TH ... methods based on Agrobacterium

www.global-engage.com/event/plant-genomics-asia/ #GEPGC17

10-11 April 2017Hong Kong

PLANT GENOMICS & GENE EDITING ASIA CONGRESS

GLOBAL ENGAGE’S 4TH

Utilizing NGS, Omic and Gene Editing Technologies To Progress Plant Research

WARM WELCOME

Thank you for your interest in the 4TH Global Engage 2017 Plant Genomics and Gene Editing Asia Congress.

Global Engage is pleased to announce, as part of their Next Generation Sequencing series of events which will be held on 10-11 April 2017 in Hong Kong. The successful event, which was attended by over 200 people last year, is part of our highly respected Plant Genomics Series which includes a European meeting each May and US meeting each September which attract another 500 delegates each year.

Attracting experts working in all areas of plant science, the event will examine the latest NGS platforms and omic technologies being used for progressing plant based research in aspects such as genome editing, crop trait development, epigenetics, phenotyping, plant microbiome, and disease resistance as well understanding tools to overcome bottlenecks and enable successful data analysis and management.

Presentations concentrate on, but are not limited to, regional and model crops such as rice, wheat, maize, barley, soybean, canola/rapeseed, arabidopsis, palm oil, etc. in order to attract delegates across Asia Pacific region and beyond.

Plant research has transformed dramatically over the last 5 years as a result of the revolutionary breakthroughs and reduction in cost in sequencing. Many plants have been successfully sequenced and a wide range of biological data sets made available. Plant scientists are therefore making use of state of the art sequencing platforms to help explain biological principals, advance research and therefore enable benefits such as crop improvement/breeding etc. by harnessing the greater understanding of plant genomes.

Should you be either an expert already using NGS for plant analysis with a desire to extend your knowledge or for researchers keen to invest in sequencing/omic technology and looking to learn which platform suits your requirements - the conference will provide an interactive networking forum to answer your queries through a vibrant exhibition room full of technology providers showcasing their technologies and other solutions, expert led case study presentations, and interactive Q&A panel discussions examining topics through four separate tracks.

JOHN MANNERSFlagship Director in Agriculture,

CSIRO, Australia

JEFF BENNETZENProfessor, University of Georgia, USA,

Kunming Institute of Botany, and Anhui Agricultural University, China

YUE-IE HSINGDistinguished Research Fellow,

Academia Sinica, Taiwan

TOM BRUTNELLPrincipal Investigator and Director

of the Enterprise Institute for Renewable Energy, Donald Danforth

Plant Science Center, USA

EXPERT SPEAKERS Include:

PLANT GENOMICS AND GENE EDITING CONGRESS ASIA 2017

CONFERENCE SYNOPSIS

DAY 1 STREAM 1

• NGS platform comparison / Best practice guidelines / New technology / Future uses

• Genome editing – Application of TALENs and CRISPRs in plants• Phenomics and high-throughput phenotyping technologies• Genotyping by sequencing and genome / DNA assembly• Transcriptomics• Sample preparation technology• High resolution scanning• SNP discovery, QTL mapping, Alternative splicing & Marker-

assisted selection• Panel Discussion: Challenges and Potential Solutions for Food

Security in Asia-Pacific

NGS, Omic and Gene Editing Technologies for Plant Research

DAY 1 STREAM 2

• Plant microbiome studies• Plant-pathogen interactions• Molecular marker development / Marker assisted selection• Crop / trait improvement – e.g. stress resilience• Plant breeding e.g. novel breeding techniques, breeding by design,

hybridization• Biofuels research

Plant Genomics Case StudiesApplications of NGS in plant research / Using genomic technologies to enhance:

DAY 2 STREAM 1

• Genome Editing• Epigenetics• DNA methylation• Crop / trait improvement – e.g. stress resilience• Gene silencing• Gene expression• RNA, miRNA, and ncRNA analysis

Plant Genomics Case Studies – Cereal and Oil CropsCase studies using:

DAY 2 STREAM 2

• Bioinformatics – analysis and challenges• Gene network studies

• Identifying novel functional genes /networks / knowledge from data

• NGS data analysis• Application of bioinformatics software for DNA / RNA analysis• Gene expression analysis• Sequencing pipelines and assembly• Improving error rates• Cloud computing and storage solutions

A) Bioinformatics, Data Management & Analysis

• Metabolic Engineering• Plant Metabolism / Pathway manipulation• Quantitative and functional proteomics• Systems biology analysis

B) Plant Genomics Case Studies – Metabolomics and Proteomics

UNABLE TO MAKE THE HONG KONG DATES? Why not sign up for our other meeting in the US

USA: 2-3 November 2017 – Philadelphiawww.global-engage.com/event/plant-genomics-usa

CONFIRMED SPEAKERS

JOHN MANNERSDirector, CSIRO Agriculture and Food, Australia

JEFF BENNETZENProfessor, University of Georgia, USA, Kunming Institute of Botany, and Anhui Agricultural University, China

HILA BEN HAMOSenior Sales Manager, APAC Region, NRGene, Israel

INEZ HORTENSE SLAMET-LOEDINHead of Transformation, IRRI, Philippines

HAIYANG WANGProfessor, Biotechnology Research Center, Chinese Academy of Agricultural Sciences, China

PETER WATERHOUSEProfessor of Molecular Genetics, Queensland University of Technology, Australia

ROBERT PARKProfessor and Chair in Sustainable Agriculture, University of Sydney, Australia

RAJA KOTAGenetic Analysis Team Leader and NGS Platform Manager, Syngenta, USA

MAURICE CHEUNGAssistant Professor, Yale-NUS College

PAUL TAYLORProfessor and Director, International Faculty of Veterinary and Agricultural Sciences, University of Melbourne, Australia

YUE-IE HSINGDistinguished Research Fellow, Academia Sinica, Taiwan

KAIJUN ZHAOProfessor, Institute of Crop Science, Chinese Academy of Agricultural Sciences, China

DAVE EDWARDSProfessor, University of Western Australia

SHUICHI YANAGISAWAAssociate Professor, Biotechnology Research Center, University of Tokyo, Japan

TOM BRUTNELLPrincipal Investigator and Director of the Enterprise Institute for Renewable Energy, Donald Danforth Plant Science Center, USA

CHRISTOPHE REUZEAUSenior Licensing Manager Asia Pacific, BASF CropDesign, Belgium

XIA LIProfessor, Huazhong Agricultural University, China

HONMING LAMProfessor and Director of Molecular Biotechnology and the Centre for Soybean Research, Chinese University of Hong Kong, Hong Kong

MINAMI MATSUI Synthetic Genomics Research Group Director, RIKEN, Japan

ARINTHIP THAMCHAIPENETAssociate Professor, Kasetsart University, Thailand

RYOUNG SHINLeader of the Regulatory Network Research Unit, RIKEN, Japan

QIUDENG QUEGroup Leader and Principal Researcher, Syngenta, USA

HARIKRISHNA KULAVEERASINGAMHead of R&D, Sime Darby Research

NING LIProfessor, Hong Kong University of Science and Technology, Hong Kong

JIA-LONG YAO (Stream Chair)Senior Scientist, New Zealand Institute for Plant and Food Research

SHANE MURRAYAgri-Genomics Project Manager, Centre for Proteomic and Genomic Research, South Africa

CHRISTINE SHYUPostDoctoral Fellow, Donald Danforth Plant Science Center, USA

NEAL GUTTERSONVP of R&D, DuPont Pioneer, USA

LIANGHUI JISenior Principal Investigator, Temasek Laboratories, Singapore

CLIVE LOAssociate Professor, University of Hong Kong

BYOUNG-CHEORL KANGProfessor, Department of Plant Science, College of Agriculture and Life Sciences, Seoul National University, South Korea

FUMIHIKO SATOProfessor, Kyoto University, Japan

NICKOLAI ALEXANDROVSenior Scientist, Bioinformatics, International Rice Research Institute (IRRI), The Philippines

SUBASH BOSE (Stream Chair)Head of Development Technology & Operations, R&D Asia Pacific, Syngenta, Singapore

TETSUYA ISHII Professor, Hokkaido University, Japan

KRISTIAN RIDLEYProject manager Agrigenomics, Thermo Fisher Scientific

SACHIKO ISOBEHead of Plant Genomics and Genetics Laboratory, Kazusa DNA Research Institute, Japan

MEILINA ONG ABDULLAHPrincipal Researcher, Breeding and Tissue Culture Unit, Advanced Biotechnology and Breeding Centre, Malaysian Palm Oil Board, Malaysia

VENKATRAMANA PEGADARAJUMarket Development Manager, Agrigenomics, Illumina


SERIES SPONSOR

Gold Sponsors 2017

Exhibitors 2017

Sponsors 2017

Sponsors 2016

2017 EVENT SPONSORS

CONGRESS SCHEDULE

9:00

-09:

40

DAY 1 MONDAY 10TH APRIL 2017

08:00-08:50

8:50-09:00 Global Engage Welcome AddressStream Chairs Opening Remarks: Subash Bose, Head of Development Technology & Operations, R&D Asia Pacific, Syngenta, Singapore

9:40

-10:

10

KEYNOTE ADDRESS:JEFF BENNETZENProfessor, University of Georgia, USA, Kunming Institute of Botany, and Anhui Agricultural University, ChinaThe plant genetics of microbiomes in the nucleus, leaf, root, and rhizosphereMicrobes are abundant in all environments on our planet, and they are especially prominent in their interactions with plants. Many of these “phytomicrobes” (especially the self-replicating entities called transposable elements) have an almost

completely nuclear lifecycle, while others partition their activities between the plant surface (ectophytes), the interior of the plant (endophytes) and the various environments surrounding the plant (e.g., the rhizosphere). My lab has been characterizing the degree to which plant genetic variation determines the microbial composition in the phytosphere, including the mapping of genes responsible for particular plant microbe associations. This work features studies from important crops like switchgrass (Panicum virgatum) and tea (Camellia sinensis), and also studies of highly favorable model systems, such as the pitcher fluids of various carnivorous Saracenia species. Our results indicate that many associations are determined by specific alleles of specific plant genes, and that these genes are different for different microbial associations.

10:10

-10:

40

SOLUTION PROVIDER PRESENTATION:HILA BEN HAMOSenior Sales Manager, APAC Region, NRGene, Israel2017, The year of PanGenomeThe genetic diversity currently exploited and employed in breeding is only partially represented by one reference genome, due to interspecies variability such as INdels translocations and inversions, which are abundant in plants. To capture

the genomic diversity of a given plant species, one needs to create and compare multiple de-novo full genomes representing genetically distinguished lines, ultimately creating a pan-genomic view. Here we present the successful de novo assembly and all-to-all comparison of several maize and bread-wheat genomes, revealing significant genomic and intragenic sequence additions to the first available reference genome. In addition, we announce a global effort to create a pan-genome of virtually every major crop plant within 2017.


KEYNOTE ADDRESS:JOHN MANNERSDirector, CSIRO Agriculture and Food, AustraliaBringing science and market trends together via genome-enabled breeding• Growing population size and increased wealth in Asia are creating challenges and opportunities respectively for crop breeding.• Applications of molecular breeding have led to the generation of healthy plant-based food market-focused products that have

either been commercialised or are in the commercial pipeline. These include healthy & nutritious cereal grains, novel oils such as those enriched in omega-3 long chain fatty acids.

• Mining genomes for disease resistance genes has led to strategies that now promise durable resistance to important pathogens such as rusts and necrotrophs, optimising attainable yield.

• Technological innovations in gene editing, genomics and biologicals promise a broader range of opportunities for the future.

10:40-11:40

RefreshmentsRoom: Jade Ballroom

Room: Pearl Ballroom

Morning Refreshments / Even Numbered Poster Presentation SessionsRoom: Jade Ballroom

CONGRESS SCHEDULE


12:0

5-12

:30

LIANGHUI JISenior Principal Investigator, Genome Structural Biology, Temasek Laboratories and National University of Singapore, SingaporeGM and Non-GM approaches for improving biomass and seed oil production in tree crops

Oil palm and Jatropha curcas are two of the most productive tree crops for oil. The development of reliable genetic engineering (GM) methods based on Agrobacterium tumefaciens-mediated transformation of somatic embryogenic calli will be presented for both plants. Jatropha curcas is an emerging biofuel plant that can utilize marginal land. However, high male to female flower ratio and relatively low seed productivity are amongst the factors limiting its large-scale commercialization. We will present our success in improving the production of female flowers and total seed yield by the transgenic approach. In addition, we will present our success and current problems in using endophytic nitrogen-fixing bacteria for improving the production of biomass and seeds in various plants, including oil palm, Jatropha and eucalyptus.

12:0

5-12

:30

PETER WATERHOUSEProfessor of Molecular Genetics, Queensland University of Technology, AustraliaExploring, assembling and editing the genomes of benths and bananas

• Unusual genome of the model plant Nicotiana benthamiana• Genome editing with CRISPR• Examining the Cavendish banana genome


12:3

0-13

:00

SOLUTION PROVIDER PRESENTATION:VENKATRAMANA PEGADARAJUMarket Development Manager, Agrigenomics, Illumina New Frontiers in Genome Sequencing and Genotyping technologies to Improve Genetic Gain in CropsRapid decline in genome sequencing and genotyping cost is enabling utilization of genomic information at an unprecedented rate in crop improvement programs. A paradigm shift from understanding single reference genome data to seeking “pan

genome “level of resolution is an emerging trend in many species. This new approach offers the ability to identify novel sources of genes and allelic variations for trait improvement and to restore genetic diversity in modern breeding programs. Furthermore, breeders can leverage the pan genome data to characterize haplotype information of breeding populations and device low cost imputation based genotyping strategies to improve selection accuracies in genome selection programs. Illumina offers and extensive range of genomics tools and platform technologies with simplified and streamlined workflows. These tools can be applied in an affordable and scalable manner to improve the efficacy of crop improvement programs. The scope of the talk would cover the utility of discovery, development and deployment tools and their application in genomics assisted breeding programs.

NGS, OMIC AND GENE EDITING TECHNOLOGIES FOR PLANT RESEARCH PLANT GENOMIC CASE STUDIES

Stream Chair: Subash Bose, Head of Development Technology & Operations, R&D Asia Pacific, Syngenta, Singapore

Stream Chair: Jia-Long Yao, Senior Scientist, New Zealand Institute for Plant and Food Research

11:4

0-12

:05

KAIJUN ZHAOProfessor in Molecular Biology of Rice Disease Resistance, Institute of Crop Science, Chinese Academy of Agricultural Sciences, ChinaEnhancing rice blast resistance via CRISPR/Cas9-based genome editing

Rice blast is one of the most destructive diseases affecting rice worldwide. The adoption of host resistance has proven to be the most economical and effective approach to control rice blast. In recent years, sequence-specific nucleases (SSNs) have been demonstrated to be powerful tools for genetic improvement of crops via gene-specific genome editing. I will talk about our efforts for improvement of rice blast resistance by engineering SSNs targeting the OsERF922 gene in rice. Our results indicate that genome editing via CRISPR/Cas9 is a useful approach for enhancing blast resistance in rice.

11:4

0-12

:05

ARINTHIP THAMCHAIPENETAssociate Professor, Department of Genetics, Kasetsart University, ThailandEffect of ACC-deaminase producing endophytic Streptomyces sp. GMKU 336 towards salt stress in rice plants

• Endophytic actinomycetes improve plant health under salt stress by the action of 1-aminocyclopropane-1- carboxylic acid (ACC) deaminase which converses ACC, a precursor of ethylene in plant, into ammonia and ketobutyrate.

• ACC-deaminase deficient Streptomyces sp. GMKU 336 was constructed. Inoculation of wild type and mutant into Oryza sativa L. cv. KDML105 revealed that strain GMKU 336 could promote rice growth and salt tolerant, while the mutant could not.

• Transcription profiles of genes involved in salt stress of KDML 105 when inoculated with strain GMKU 336 under salt stress condition presented less expression of genes involved in ethylene such as ACO1 and EREBP1; while genes involved in Ca2+ signalling, camodulin, Na+ transporter and osmotic balance were up-regulated when compared with uninoculated and mutant inoculated plants.

Room: Pearl Ballroom Room: Jordan Room

CONGRESS SCHEDULE


14:5

0-15

:15

RAJA KOTASenior Scientist and Team Leader, Syngenta Crop Protection, USAApplication of NGS technologies in Plant Breeding: A Case StudyWith the ever increasing demand for food and biofuels, applied plant biology and agricultural biotechnology are starting to play an important role in sustainable agriculture. Growers are constantly under pressure to produce more while continuing to deal with the inherent uncertainties of agriculture, including commodity prices, water availability, insect pests, and soil quality. Syngenta

is among the world’s leading agribusiness companies focused on crop improvement and protection through advanced breeding and biotechnology. Through focused internal research & development and the integration of technology from external partnerships, Syngenta develops novel agricultural innovations and delivers their promise to the growers. This presentation will provide an overview of the current landscape on the application of NGS technologies in plant breeding with an appropriate case study.


15:15

-15:

45

SOLUTION PROVIDER PRESENTATION:KRISTIAN RIDLEYProject manager Agrigenomics, Thermo Fisher ScientificFlexible, Scalable and Simple Solutions for Molecular Breeding: Ion AgriSeqTM Genotyping-By-Sequencing Ion AgriSeq is a highly multiplex PCR-based targeted resequencing approach for genotyping hundreds to thousands of SNPs using Ion Torrent next generation sequencing. Customised panels can be designed to any species with a reference genome,

and is ideally suited to molecular breeding applications such as marker-assisted selection which require high sample throughput combined with a simple and rapid workflow. We will present an overview of the technology and some examples of the applications in crop genetics.

14:0

0-14

:25

14:0

0-14

:25

14:2

5-14

:50

DAVE EDWARDSProfessor, University of Western AustraliaDNA Sequencing, does length matter?Next generation DNA sequencing has revolutionised biology. Draft genome assemblies are being produced for a diverse range of species,

with many recent genome assemblies being produced using data the common short read Illumina sequencing platform. While long read sequencing has been around for a few years, the low accuracy of these platforms has limited their practical application. Recent advances have seen an increase in the use of long read sequencing for genome assembly, competing with advanced algorithms for the assembly of large insert short read data. With the rapid changes in sequencing technology, researchers need to make decisions as to which is the best tool to ask their biological questions. In this presentation, I will outline the recent changes in DNA sequencing and comment on approaches for the application of this data.

14:2

5-14

:50

INEZ HORTENSE SLAMET-LOEDINHead of Transformation, IRRI, The PhilippinesTargeted transformation in the ‘safe harbor’ locus and genome editing to improve mironutrient content in the rice grain• The strategy to increase micronutrient content

in tropical rice using Fe and Zn homeostasis genes• The use of TALEN technology to obtain marker free events with

the transgenes integrated in a ‘safe harbor’ locus in indica rice• The use of CRISPR-CAS9 technology for the replacement of a

regulatory element of a gene involve in iron homeostasis

SACHIKO ISOBEHead of Plant Genomics and Genetics Laboratory, Kazusa DNA Research Institute, Japan Sweetpotato genome sequencing under TRAS collaborationSweetpotato (Ipomoea. batatas (L.) Lam) is widely

cultivated around the world, especially in Eastern Asia. Though its agricultural importance, genetic and genomic study in sweetpotato is behind because of its complex genome structure (2N = 6x = 90, genome size = 2.5Gb). The sweetpotato genome sequencing consortium was started in 2013 with six organizations, Institute of Sweetpotato Research, Chinese Academy of Agricultural Sciences (China), China Agricultural University (China), Rural Development Administration (Korea), Korea Research Institute of Bioscience and Biotechnology (Korea), National Agriculture and Food Research Organization (Japan) and Kazusa DNA Research Institute (Japan). Genome sequencing of a Chinese variety ‘Xushu 18’ was performed by Illumina and PacBio platforms and assembled with plural programs. Linkage map was also constructed based on SNPs generated by dd-RAD-Seq.

CLIVE LOAssociate Professor, School of Biological Sciences, The University of Hong Kong, Hong KongRecruitment of cytochrome P450 enzymes for flavone biosynthesis in riceFlavones are flavonoids found extensively in land

plants with important physiological functions like UV protection, interactions with other organisms, co-pigmentation in flowers, etc. They are increasingly popular as dietary constituents or supplements due to their health-beneficial properties. In grasses, flavones are predominantly accumulated as C- or O-linked conjugates in vegetative tissues. The enzymology of flavone biosynthesis remained largely elusive until recent years. Our recent work demonstrated the involvement of distinct rice cytochrome P450 enzymes for the biosynthesis pathways of flavone C- and O-linked conjugates. We further revealed the modification of lignin compositions in our flavone mutants. These novel P450 enzymes are highly conserved among grass genomes. They represent good targets to engineer flavones in edible tissues and modify lignin for enhanced biomass utilization.

13:00-14:00 LunchRoom: Jade Ballroom

15:45-16:35 Afternoon Refreshments / Odd Poster Presentation SessionsRoom: Jade Ballroom

CONGRESS SCHEDULE


17:2

5-18

:00

PANEL DISCUSSIONChallenges and Solutions for Food Security in Asia-Pacific

CHAIR:ROBERT PARKProfessor and Chair in Sustainable Agriculture, University of Sydney, Australia

TETSUYA ISHII Professor, Hokkaido University, Japan

YUE-IE HSING Distinguished Research Fellow, Institute of Plant and Microbial Biology, Academia Sinica, Taiwan

JOHN MANNERSDirector, CSIRO Agriculture and Food, Australia

16:3

5-17

:00

SHUICHI YANAGISAWAAssociate Professor, Biotechnology Research Centre, The University of Tokyo, JapanPhenome analysis of natural genetic variations with Arabidopsis ecotypes and rice cultivars: Visualization of different nutrient uptake ability

Uptake and utilization of plant nutrients are essential processes to maintain vegetative growth and reproduction in plants, and thereby efficiencies of uptake and utilization of nutrients severely influence plant biomass and crop yields. I introduce our new phenome analysis in which we visualize the nutrient uptake efficiency that are genetically and differentially prescribed in distinct Arabidopsis ecotypes and rice cultivars. I will also talk about the molecular mechanism controlling utilization of nitrogen, one of the most important micronutrients of plants, and discuss about connections between modulations in the mechanisms and different efficiencies of nutrient uptake and utilization.

16:3

5-17

:00

XIA LIProfessor, Huazhong Agricultural University, ChinamiR172c fine-tunes nodulation in soybeanLegume-rhizobia symbiotic nitrogen fixation is a fundamental biological question and an important agricultural trait in legumes. However,

the molecular mechanisms underlying nodulation including rhizobia-plant cell interaction, nodule organogenesis and nitrogen fixation efficiency of mature nodules in legumes remain largely unknown. Recently, we found that miR172c, a small noncoding RNA, play a central role in fine tuning nodule number through its target gene, an AP2/ERF transcription factor NNC1 in soybean. miR172c-NNC1 module activates nodulation through targeting GmENOD40 and controls ultimate nodule number by targeting RIC1/2 that activate autoregulation. Thus, we identify a key molecular module in soybean nodule number control that can be a potential target for genetic improvement of nitrogen fixation efficiency and reveal the miR172-based regulatory mechanism that is pivotal for legume nodulation.

17:0

0-17

:25

MINAMI MATSUIDirector of the Center for Sustainable Resource Science Biomass Engineering Division, RIKEN, JapanRubber Genome and CAGE analysis of its transcriptome• Rubber tree or Hevea brasiliensis is

indispensable for production of high quality of natural rubber.• We determined draft genome sequence with 1.55Gb.• We found it has high genome synteny with Euphobiaceae, M.

esculenta, R. communis and Jatropha. • The production of latex is mainly from laticifer cells localized in the

bark and latex is emulsion of rubber particle consists of rubber-related proteins and polyisoprene.

• Genes for rubber-related proteins were making gene cluster with same transcriptional direction in the genome.

• We carried on transcriptome analysis based on CAGE (Cap-analysis Gene Expression) method to define exact transcription start sites (TSSs) to understand transcriptional control of these genes.

17:0

0-17

:25

HONMING LAMProfessor and Director of Molecular Biotechnology, Chinese University of Hong Kong, Hong KongUsing Genomic, Genetic, and Molecular Approach to Explore Wild SoybeanWild germplasms such as wild soybean are important genetic resources for new genes and

alleles for crop improvement. We have employed a combination of genomic, genetic, and molecular approach to explore wild soybean. Some new QTLs and useful genes have been successfully obtained.

18:00-19:00 Chairs Closing Remarks and End of Day 1 / Networking Drinks ReceptionRoom: Jade Ballroom

CONGRESS SCHEDULE

Refreshments

09:0

0-09

:40

KEYNOTE ADDRESS:TOM BRUTNELLPrincipal Investigator and Director of the Enterprise Institute of Renewable Fuels, Donald Danforth Plant Science Center, USASetaria viridis: accelerating gene discovery in panicoid cropsSetaria viridis is an emerging model system for gene discovery in panicoid grasses. With a sequenced reference genome of 510 Mb, a sequenced diversity panel of over 500 accessions and a large NMU-mutagenized population, we have established a core set of materials for genetic analysis. We have also optimized transformation technologies and are utilizing the CRISPR/Cas9 genome

editing system to precisely engineer the genome. Here I will demonstrate the use of S. viridis as a model to accelerate gene discovery of inflorescence architecture traits in maize, dissect the C4 photosynthetic pathway and to define components of the Jasmonic Acid signaling. As the panicoid grasses include some of the world’s most important food, feed and bioenergy grasses, S. viridis is well placed to enhance our fundamental understanding of several agronomically important traits.

DAY 2 TUESDAY 11TH APRIL 2017

08:30-08:55

08:55-09:00 Stream Chair Welcome Address:Shane Murray, Agri-Genomics Project Manager, Centre for Proteomics and Genomic Research, South Africa

10:15

-10:

40

QIUDENG QUEPrincipal Research Scientist and Leader of the Biology Technology Group, Syngenta, USAPrecise genome engineering for maize crop improvement

• Performance of a few genome editing technology options in maize• Efficiency enhancement of precise allele replacement and targeted

insertion • Development of high throughput editing event analysis and

characterization capability

10:15

-10:

40

YUE-IE HSINGDistinguished Research Fellow, Institute of Plant and Microbial Biology, Academia Sinica, TaiwanGenomics and transcriptomics analysis of an oil-rice orphan cerealEccoilopus formosanus (Taiwan Oil Millet, TOM)

is an orphan cereal endemic to Taiwan. It is a perennial C4 species, remarkable in that it secretes large quantities of oil and/or liquid wax on the panicle and copious amounts of solid wax on the leaf sheaths of a substantial vegetative biomass. We analysed their oil/wax production using metabolimics approach. We also studied the enzymes/pathways responsible for the high oil/wax production by genomics and transcriptomics analysis.

10:45-11:35

PLANT GENOMIC CASE STUDIES: CEREAL CROPS BIOINFORMATICS, DATA MANAGEMENT & ANALYSIS

Stream Chair: Shane Murray, Agri-Genomics Project Manager, Centre for Proteomics and Genomic Research, South Africa

09:4

0-10

:15

Stream Chair: Christine Shyu, Postdoctoral Fellow, Donald Danforth Plant Science Center, USA


KEYNOTE ADDRESS:NEAL GUTTERSONVP of R&D, DuPont Pioneer, USATargeted breeding applications of CRISPR-Cas technology for Asian marketsCRISPR-Cas as an advanced plant breeding tool is a more efficient way to improve plants and help farmers produce more and better food, with fewer resources. The superior properties of CRISPR-Cas allows DuPont Pioneer scientists to develop innovative

and sustainable seed products for growers similar to those realized through conventional plant breeding, but with even greater efficiency, accuracy and quality. Pioneer is leading the application of this tool to develop customized agriculture solutions. In this talk, potential product targets of this promising technology will be discussed, including wheat improvement based on a rich understanding of the wheat genome. Approaches to fostering social license and developing an open innovation model for CRISPR-Cas will also be reviewed.

Room: Jade Ballroom


Morning Refreshments / Poster Presentation SessionsRoom: Jade Ballroom

CONGRESS SCHEDULE


12:50-13:50

12:2

5-12

:50

MAURICE CHEUNGAssistant Professor of Science, Yale-NUS CollegeGenome-scale metabolic modelling: from genomes to metabolic phenotypes

• The process and challenges in constructing genome-scale metabolic models from plant genomes

• Predicting metabolic phenotypes from genome-scale metabolic models• Future advances and possibilities in plant genome-scale

metabolic modelling12:2

5-12

:50

SHANE MURRAY Agri-Genomics Project Manager, Centre for Proteomics and Genomic Research, South AfricaRNA-Seq of Resistant and Susceptible Sub-tropical Maize lines reveals a role for Phytoalexins in Resistance to Grey Leaf Spot Disease, caused by Cercospora zeina

Maize is an important food-security crop in Southern Africa and is severely affected by many fungal pathogens, including Cercospora zeina, the causal organism of Grey Leaf Spot (GLS) Disease. Maize produces a wide range of defense responses, including the production of antimicrobial phytoalexins, which comprise the kauralexin and zealexin families. We used RNA-Seq to identify candidate phytoalexin biosynthetic genes differentially expressed between a resistant and a susceptible sub-tropical maize line in response to C. zeina. This was followed by targeted phytoalexin profiling of C. zeina-inoculated leaves. Total kauralexin accumulation was correlated to the induction of key kauralexin biosynthetic genes, An2 (encoding ent-copalyl diphosphate synthase), KSL2 encoding a kaurene synthase-like protein and syn-CPS (CPS3), a novel gene induced by C. zeina solely in the resistant line.

12:0

0-12

:25

12:0

0-12

:25

NICKOLAI ALEXANDROVSenior Scientist, Bioinformatics, International Rice Research Institute (IRRI), The PhilippinesDiscoveries made from the 3,000 rice genome sequencing projectAnalysis of the 3,000 rice genomes revealed

unprecedented amount of genome diversity in Oryza Sativa, defined population structure with remarkable precision, identified genes and genome regions with unusual conservation and discovered haplotype structure of domestication genes. Combining sequence data with available phenotypic information we were able to find new trait-loci associations and validate many previously known associations. We created a portal (SNP-Seek) for allele mining and visualization of genes, genome variations and germplasms

HAIYANG WANGProfessor, Biotechnology Research Institute, Chinese Academy of Agricultural Science, ChinaDissecting the molecular genetic basis of shade avoidance response in Arabidopsis and Maize

Increasing the planting densities has been used as an effective approach for increasing crop yield per unit land area. However, plants compete with neighboring vegetation for light when planting at high densities, triggering a series of responses known collectively as shade avoidance syndrome (SAS), which negatively impact on plant’s fitness, disease resistance, and yield. Our preliminary studies suggested that phytochrome B (phyB)-mediated light signaling pathway interacts the miR156/SPL pathway to regulate different aspects of SAS in both Arabidopsis and maize. Current undergoing work is to dissect the detailed molecular mechanisms by which phyB regulates SAS through the PIF-miR156-SPL genetic pathway in both Arabidopsis and maize. Our results may facilitate the breeding of shade-tolerant maize by attenuation or refinement of SAS in maize.


11:3

5-12

:00

ROBERT PARKProfessor, Judith & David Coffey Chair in Sustainable Agriculture, and Director of Cereal Rust Research, University of Sydney, AustraliaUnderstanding the enemy in the ongoing battle against plant rusts

The genetic improvement of cereals over the past 8,000 years or so has guided the evolution of pathogens such as the rusts, leading to devastating epidemics and huge yield losses. The rust pathogens are obligate biotrophs, having evolved a very close relationship with their hosts. Rust genomes sequenced to date have shown that they are larger than most other fungi due to an expansion of repetitive elements and genes involved in processes such as host wall modification, transport and antioxidant defence. There is evidence of gene loss in certain metabolic pathways such as sulphate assimilation, which could explain why these fungi grow so poorly on artificial media. A significant amount of research is being targeted at present to the identification of small secreted effector proteins, which are believed to be recognized by the host in the triggering of resistance.

11:3

5-12

:00

CHRISTOPHE REUZEAUSenior Licensing Manager Asia Pacific, BASF CropDesign, BelgiumImaging and data interpretation – key technology for plant evaluation and beyondOur activities focused on discovering genes

to increase crop traits (biomass, seed yield, stress tolerance). The TraitMill functional genomic platform measures gene effects on plant parameters precisely quantified by imaging and image analysis. Our platform was successfully used to validate gene functions and pathways, including multiple promoter-gene combinations. Other platforms are used to identify fungal resistance and herbicide tolerance genes. We recently added tools to investigate effects of chemical applications to plants. Our 15y experience in high through-put phenotyping (engineering, robotics, plant growth, treatments, imaging, data analysis, modeling, interpretation) allows analysis of any plant genome modification and external plant treatment in the most robust way to study, understand, improve plant traits and provide solutions for customers in agriculture, food and health.

LunchRoom: Jade Ballroom

CONGRESS SCHEDULE


14:4

0-15

:05

PAUL TAYLORProfessor of Plant Pathology and Director of the International Faculty of Veterinary and Agricultural Sciences, University of Melbourne, AustraliaCold tolerant Brassica napus expressing Acyl-Co A-binding protein

Canola (Brassica napus) is important in winter crop rotation in Australia. Frost is an abiotic stress that causes abortion of open flowers or death of developing seeds resulting in poor pod fill or low oil yield. An Arabidopsis Acyl-Co A-binding protein (ACBP6) encoding gene has been identified as a source for frost tolerance. Agrobacterium-mediated transformation was used to transfer the ACBP6 gene into various B. napus genomes. Freezing bioassays at -4oC, showed that T3 transgenic plants had low leaf electrolyte leakage and maintained percent living tissue of the cotyledons of developing seeds.


14:15

-14:

40

MEILINA ONG ABDULLAHPrincipal Researcher, Breeding and Tissue Culture Unit, Advanced Biotechnology and Breeding Centre, Malaysian Palm Oil Board, MalaysiaSustainable Oil Palm Cultivation via Molecular Precision Agriculture

Malaysia’s rich oil palm germplasm resource coupled with the advent of genome technologies and the declining cost of sequencing has tremendously accelerated oil palm genomics research. Acknowledging the potential gap between discoveries and practical applications, our early research has been focused on simple traits such as in the formation of shell in oil palm fruits and fruit colour as well as in addressing pertinent issues in the industry for example abnormality in oil palm clones. These findings have since been developed into ready-to-use technologies; however there has been a snag in their adoption. While improvements in agribiotechnology certainly hold considerable promises, significant implementation gaps that exist may reduce their impact. It is our hope that as the oil palm industry in Malaysia celebrates its 100th anniversary; it will break away from traditions and trailblaze into the future as innovators of the industry.

14:15

-14:

4013

:50-

14:15

RYOUNG SHINHead of the Regulatory Network Research Unit, RIKEN, JapanUnderstanding the plant response to cesium and potassium using metabolomics profiling and chemical screening

Potassium is an essential macronutrient, but cesium has no nutritional value for plants. However plants absorb and accumulate certain levels of cesium. Cesium and potassium share similar chemical properties, and it is known that cesium accumulation in plants through potassium uptake system. However how plants respond to potassium and cesium and regulate their movements remains unknown. Metabolic profiling was performed for understanding plant responses to potassium and cesium. The level of many amino acids including cysteine was increased by cesium treatment. Cysteine and a chemical which was identified from the chemical screening, a derivative of cysteine, play the positive roles for cesium accumulation in plants. In this presentation, plant responses to cesium and potassium will be discussed focusing on the alteration of metabolites.

13:5

0-14

:15

HARIKRISHNA KULAVEERASINGAMHead of R&D, Sime Darby ResearchExploiting novel genetic variation in oil palm and its commercial useWe have completed a GWAS study of 7,000 palms using a 200k SNP chip and identified QTL markers

for yield such as oil to dry mesocarp (ODM), fresh fruit bunch weight (FFB) and bunch number (BNO). A modified Genomic Selection approach using a 1k SNP panel optimized for oil yield identified high yielding palms for commercial planting. Interestingly, a significant number of these SNP’s did not correspond to key variants in yield trait loci such as ODM, BNO or FFB. This implies that breeding progress can be made through the selection of loci outside traditional yield QTLs, associated with global changes in amino acids, energy and sugar metabolites that are indicative of new key source-drivers for genetic progress in these populations.

PLANT GENOMICS CASE STUDIES: OIL CROPS METABOLOMICS AND PROTEOMICS CASE STUDIES

NING LIProfessor, Hong Kong University of Science and Technology, Hong Kong Functional and quantitative PTM proteomics in study of plant cell signaling

• Establishment of stable isotope labeling based quantitative PTM proteomics in a model plant Arabidopsis

• Quantitative PTM profiling of Arabidopsis signaling mutants • Biochemical and biological validation of the roles of PTM sites in

plant growth

14:4

0-15

:05

FUMIHIKO SATODepartment of Plant Gene and Totipotency, Graduate School of Biostudies, Kyoto University, JapanSynthetic biology of plant specialized metabolism using NGS information of non-model medicinal plants

Synthetic biology is powerful strategy to reconstruct biosynthetic pathways when molecular tools are available. Here, we report the potentials of this strategy as a case study in isoquinoline alkaloid biosynthesis. So far, we have characterized biosynthetic enzyme genes of specialized metabolism using a combination of transcriptome and metabolome. However, when we had established a microbial platform to synthesize specialized metabolites, such as isoquinoline alkaloids, from simple substrate, and also obtained deep RNA and draft genome sequences of medicinal plants using NGS, we started to adapt a new synthetic biological approach. That is, candidate biosynthetic enzymes such as O-methyltransferases and P450s were expressed in microbial cells to characterize the biosynthetic activity in an in-vitro pathway-reconstruction system. Successful identification of several biosynthetic enzyme genes and production of some metabolites will be discussed.


CONGRESS SCHEDULE


15:30

BYOUNG-CHEORL KANGProfessor, Department of Plant Science, College of Agriculture and Life Sciences, Seoul National University, South KoreaDivergent evolution of multiple virus-resistance genes from a progenitor in Capsicum spp• We cloned Pvr4 (a Potyvirus resistance gene in Capsicum annuum) and Tsw (a Tomato spotted wilt virus resistance gene in C. chinense) by a genome-based approach. The genes both encode typical NLRs and are located at the same locus on pepper chromosome 10.• Despite the fact that these two genes recognize completely different viral effectors, the genomic structures and coding

sequences of the two genes are strikingly similar. Phylogenetic studies revealed that these two immune receptors diverged from a progenitor gene of a common ancestor.

• Our results suggest that sequence variations caused by gene duplication and neo-functionalization may underlie the evolution of the ability to specifically recognize different effectors. These findings thereby provide insight into the divergent evolution of plant immune receptors.

15:0

5-15

:30

Chair’s Closing Remarks and Conference CloseRoom: Jade Ballroom

POSTER PRESENTATIONS

MAKING A POSTER PRESENTATIONPoster presentation sessions will take place in breaks and alongside the other breakout sessions of the conference. Your presentation will be displayed in a dedicated area, with the other accepted posters from industry and academic presenters.

We also issue a poster eBook to all attendees with your full abstract in and can share your poster as a PDF after the meeting if you desire (optional).

Whether looking for funding, employment opportunities or simply wanting to share your work with a like-minded and focused group, these are an excellent way to join the heart of this congress.

In order to present a poster at the forum you need to be registered as a delegate. Please note that there is limited space available and poster space is assigned on a first come first served basis (subject to checks and successful registration).

We charge an admin fee of €100 to industry delegates to present, that goes towards the shared cost of providing the poster presentation area and display boards, guides etc. This fee is waived for those representing academic institutions and not for profit organisations.

1 Towards Crispr crops Armin Scheben and David Edwards

POSTER TITLE PRINCIPAL AUTHOR(S) AFFILIATION

University of Western Australia

2

Transcriptome profiling of Desmos chinesis: Revealing the molecular basis of dipartite perianth evolution in the early-divergent

angiosperm family Annonaceae

Amy Wing-Sze Leung1, Sangtae Kim2, Boon Leong Lim1, Richard Mark Kingsley Saunders1

1School of Biological Sciences, The University of Hong Kong, Pokfulam Road, Hong Kong,

China 2Department of Biology, Sungshin Women’s University, Seoul, Republic of Korea

3

Over-expression of Elaeis guineensis Jacq. Oil Body Structural Proteins and its Influence on Lipid Accumulation in Mesocarp and in a

Yeast Model System

Anusha Nair1, Ho Li Sim1, Lim Chin Ming1, Mohamad Sanusi Jangi2, Chew Fook Tim3,

Hirzun Mohd Yusof1, David Ross Appleton1 & Harikrishna Kulaveerasingam1

1Sime Darby Technology Centre Sdn. Bhd., Sime Darby Plantation, Malaysia 2Centre for Collaborative

Innovation, Universiti Kebangsaan Malaysia, Malaysia 3Department of Biological Sciences, Faculty of

Science, National University of Singapore, Singapore

POSTER PRESENTATION EXAMPLES

4 Genome-Wide Association Study of Oil Palm’s Fruit Component Traits

Ong Ai Ling*1, Teh Chee Keng1, Kwong Qi Bin1, Chew Fook Tim2, Sean Mayes3,

Mohaimi Mohammed1, David R. Appleton1 & Harikrishna Kulaveerasingam1

Sime Darby Technology Centre Sdn Bhd

5 High Throughput Genetic Deployment Platform for Oil Palm in Sime Darby

Khairun Hafizah Mohd Zain, Sukganah Apparow, Airin Niza Za’ba, Nurshazwani Amalina Sudirman,

Arutchelvam Balakrishnan, Hafiza Abidin, Siti Zulaikha Mohd Ghazali, Fairuz Farhana Mohd Rodzik, Mohd Nor

Azizi Shabudin, Teh Chee Keng & David R. Appleton

Sime Darby Technology Center

6 CRISPR/Cpf1-mediated DNA-free Plant Genome Editing

Hyeran Kim, Sang-Tae Kim, Jahee Ryu, Beum-Chang Kang, Jin-Soo Kim & Sang-Gyu Kim Institute for Basic Science

7Evaluation of South African germplasm for phytoalexin accumulation following inoculation by Fusarium verticillioides

Amy L. Veenstra1, Naadirah Moola1, Sara S. Wighard1, Shawn A Christensen2, M.Suhail

Rafudeen1, Shane L. Murray1,3

1Department of Molecular and Cell Biology, University of Cape Town, South Africa 2Center for Medical, Agricultural, and Veterinary Entomology, United States Department of Agriculture, Gainesville,

Florida, USA 3Centre for Proteomic and Genomic Research, Cape Town, South Africa

8 Genome Re-sequencing for SNP Discovery in South African Vegetables

Nicki Adams1, Justin Mills1, Kenalemang Ntlhokoa1, Lebo Seutloali1, Godwin Mafireyi2, Glendon

Ascough2, Shane L. Murray1Sime Darby Technology Center

9 Characterization and mapping of a new lesion mimic mutant in rice (Oryza sativa L.) Zhuo Jin, Jin seok Moon and Hee-Jong Koh

Department of Plant Science and Research Institute for Agriculture and Life Sciences, Plant Genomics and Breeding Institute, Seoul National University,

Seoul, 151-921, Korea

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Documents

GLOBAL ENGAGE’S 4TH PLANT GENOMICS GENE EDITING ASIA CONGRESS€¦ · · 2017-10-22PLANT GENOMICS & GENE EDITING ASIA CONGRESS GLOBAL ENGAGE’S 4TH ... methods based on Agrobacterium