PLATFORM FOR THE NEXT GENERATION PLANT RESEARCH 2ND MICROBIOME … · 2020. 2. 28. · 1-2 june 2020 taipei, taiwan 7th plant genomics & gene editing congress: asia 2nd microbiome

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7TH PLANT GENOMICS & GENE EDITING CONGRESS: ASIA

2ND MICROBIOME FOR AGRICULTURE CONGRESS: ASIA

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7TH PLANT GENOMICS & GENE EDITING CONGRESS / 2ND MICROBIOME FOR AGRICULTURE CONGRESS: ASIA 2020

This successful event which hosted over 120 attendees last year, is a part of our highly respected Plant Genomics Series which includes our annual European and US meetings. The 2020 Asian meeting aims to attract experts working in all areas of plant science, examining the latest NGS platforms and ‘Omics 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.

Recently, artificial intelligence and machine learning has also paved its way into the world of plant science allowing for better analysis and prediction of plant genomic properties. Presentations concentrate on, but are not limited to regional and model crops such as wheat, maize, rice, Arabidopsis, cannabis, orchids, apple oilseed rape and more in order to attract delegated across Asia and beyond. Considered to the cornucopia of diverse beneficial microorganisms and nutrients, the earth soil harbour enormous potential to provide sustainable and economically favourable solutions that introduces novel approaches for agricultural improvement.

The Microbiome for Agriculture Congress will be taking a close look on the interaction of the microbiota found in the ground and its agricultural benefits to plants, the role it plays in the cycling of nutrients, the rapid growth of the agricultural biologicals industry as well as well the role microbiota plays in disease and stress resistance. Now that quality of crop germplasm is slowly replacing productivity rate as the most valuable property of crop production, these revolutionary technologies are paving the way to meet the goals of food and crop development. With access to over 50 presentations across 2 co-located events, these conferences will provide you with the opportunity to be updated on all the latest developments in the field of plant genomics, gene editing and agricultural microbiome developments.

EXPERT SPEAKERS INCLUDE:

GRAHAM KINGProfessor, Southern Cross

University, Australia

ANGHARAD MARGERET ROSCOE

GATEHOUSEChair Invertebrate Molecular Biology Director of Expertise for BioEconomy, Newcastle

University, UK

PEER SCHENKProfessor, The University of

Queensland, Australia

JAMES WHITEProfessor, Rutgers

University, USA

STEVE SWAINResearch Director for Traits, CSIRO Agriculture & Food,

Australia

BAOHONG ZHANGHTCAS Distinguished

Professor, East Carolina University, USA

JENNIFER ANN HARIKRISHNA

Director & Professor, Centre for Research in Biotechnology for Agriculture & University of

Malaya, Malaysia

CHAO-YING CHENProfessor, National Taiwan

University, Taiwan

CONGRESS SYNOPSIS

Advances in Plant ‘Omics Technology• Genotyping and

sequencing tools• Sequence generation

and assembly pipelines• Application and

case-studies of ‘omics technology – transcriptomics, proteomics, metabolomics, phenomics and multi-omics

DAY 1 TRACK 1

Opportunities and Advances in Bioinformatics for Plant ‘Omics• Machine learning and

artificial intelligence in ‘omics-current efforts & future application

• Bioinformatics tools and phenomics

• Integration of ‘omics with crop modelling and environmental data

• Big data information management and sharing

DAY 1 TRACK 2

Gene Editing for Crop Improvement• Gene editing methods,

efficiency improvement • Gene delivery systems

for gene editing• Gene editing case

studies and challenges • Application of gene

editing in plant disease resistance

DAY 2 TRACK 1

Emerging Technologies and Opportunities in Crop Development• Epigenetics,

epitranscriptomics and management of epigenetic variation

• RNAi and gene silencing technologies

• Crop biodiversity, genomic variation and marker development

• Application of Next Generation Sequencing

• Regulatory outlooks associated to plant gene editing

DAY 2 TRACK 2

• Plant & soil microbiome• Microbial interaction in

plant nutrition• Mechanism of nutritional

cycles and management• Identification of

microbiome for crop productivity and disease resistance

• Symbiotic bacteria in agriculture

• Integrated pest management

• Plant Growth Promoting Microbes (PGPM)

• Agricultural probiotics as biocontrol, biofertilizer, phytostimulator & biopesticide

• Application of ‘omics technology in agricultural microbiome

• Microbial biocontrol & biostimulant

• Plant microbes for plant stress enhancement

• Endophytic microbes

2ND MICROBIOME FOR AGRICULTURE

CONGRESS ASIA


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 congress 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 $50 to Solution Providers 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.

POSTER COMPETITION – CLOSING DATE 30TH APRIL 20201. Submit your entry prior to the closing deadline (1 entry per person)2. One winner from each Congress will be selected by the judge(s)3. The winners of the poster presentation will be given a 15-minute speaking position on the conference agenda and notified in advance of

the meeting4. The judge(s) will make the decision based on the abstract(s) submitted5. The winners will receive a certificate from the organisers6. Representatives from solution provider organisations are not eligible to enter the competition but are welcome to present posters at the

meeting as normal

**Poster space is limited so early submission is recommended

7TH PLANT GENOMICS & GENE EDITING CONGRESS ASIA

CONFIRMED PLANT SPEAKERS

ANGHARAD MARGERET ROSCOE GATEHOUSEChair Invertebrate Molecular Biology Director of Expertise for BioEconomy, Newcastle University, UK

GRAHAM KING Professor, Southern Cross University, Australia

WALLACE LIMProfessor, Hong Kong University, Hong Kong

HONG-HWA CHENDistinguished Professor, National Cheng Kung University, Taiwan

JIANBING YANProfessor, Huazhong Agricultural University, China

PRASANNA BHATData Stewardship Lead, Bayer Crop Science, India

JIA-LONG YAOSenior Scientist, New Zealand Institute for Plant and Food Research, New Zealand

MEE-LEN CHYEWilson and Amelia Wong Professor in Plant Biotechnology, School of Biological Sciences, University of Hong Kong, Hong Kong

OMID ANSARIHead of Research, Ecofibre Ltd and Ananda Hemp Ltd, Australia

JENNIFER ANN HARIKRISHNADirector & Professor, Centre for Research in Biotechnology for Agriculture & University of Malaya, Malaysia

CHRISTOPHER CULLISFrancis Hobart Herrick Professor of Biology, Case Western Reserve University, USA

BAOHONG ZHANGHTCAS Distinguished Professor, East Carolina University, USA

LEE HICKEYSenior Research Fellow, University of Queensland, Australia

UMA PRIYA KUPUSAMYHead of Microbiology Section, Department of Chemistry. Malaysia Ministry of Energy, Science, technology, Environment and Climate Change, Malaysia

HAYDE C. FLANDEZ-GALVESAssistant Professor, University of the Philippines Los Banos, Philippines

JIANG LI XIProfessor & Department Head, Zhejiang University, China

GLENN THORLBYResearch Leader, Scion, New Zealand

XIAOLIN ZENGPost-Doctor, Shanghai Center for Plant Stress Biology Chinese Academy of Sciences, China

KEQIANG WUProfessor, National Taiwan University, Taiwan

STEVE SWAINResearch Director for Traits, CSIRO Agriculture & Food, Australia

SATEESH KAGALEResearch Officer & Team Leader, National Research Council, Canada

JO-WEI HSIEHPhD Student, Academia Sinica, Taiwan

AKMAR ABDULLAHProfessor in Plant Molecular Biology, University Putra Malaysia, Malaysia

JER-YOUNG LINAssistant Research Fellow, Academia Sinica, Taiwan


CONFIRMED MICROBIOME SPEAKERS

PEER SCHENKProfessor, The University of Queensland, Australia

HUIMING ZHANGPrinciple Investigator, Shanghai Center for Plant Stress Biology, Chinese Academy of Sciences, China

RUSSELL RODRIGUEZCEO & Affiliate Professor, Adaptive Symbiotic Technologies & The University of Washington, USA

JAMES WHITEProfessor, Rutgers University, USA

CHAO-YING CHENProfessor, National Taiwan University, Taiwan

RAJEEV K. VARSHNEYProfessor & Director, Centre of Excellence in Genomics & Systems Biology, India

CHIU-CHUNG YOUNGNational Chair Professor & Academician, Academia Sinica & National Chung Hsing University, Taiwan

GREGORY SWORDProfessor & Charles R. Parencia Chair in Cotton Entomology, Texas A&M University, USA

JAE SU KIMProfessor, Chonbuk National University, Korea

CHIA-HSIN TSAIResearcher, bacterial Disease Laboratory, Taiwan Agricultural Research Institute, Taiwan

VAN T. LUUHead of Genome Editing Team & Research Associate, Max Planck Institute for Plant Breeding & University of Düsseldorf, Germany

PAO-YANG CHENAssociate Professor, Academia Sinica, Taiwan

CATUR HERMANTOResearcher & Head of Indonesian Vegetable Research Institute, Agency for Agricultural Research and Development, Indonesia

CONGRESS SCHEDULE DAY 1 MONDAY 1ST JUNE 2020

09:00-09:30

KEYNOTE ADDRESS:ANGHARAD MARGERET ROSCOE GATEHOUSEChair Invertebrate Molecular Biology Director of Expertise for BioEconomy, Newcastle University, UKNew Technologies and Molecules for Crop Protection

The need for sustainable crop production has never been greater, requiring the development of efficacious and cost-effective crop protection strategies that pose negligible risks to non-target organisms, including ecosystem service providers. Transgenic crops expressing endotoxins from Bacillus thuringiensis exemplify an effective example of more recent technologies for control of phytophagous insects. However, these products cannot provide complete crop protection due to lack of effective control of many insect pests, and evolution of field resistance within targeted pest populations. Alternative strategies can expand the repertoire of biotechnological solutions to pest control. Insect antagonists provide a novel source of protein-based insecticidal molecules that target the CNS or disrupt the immune response of the pest insect. Use of RNA interference (RNAi) also provides an attractive alternative approach to crop protection, as the technology is highly specific leading to gene silencing in a sequence-specific manner. Gene editing technologies such as CRISPR may also make a significant contribution to crop protection in the future. This presentation will provide an over view of the potential of these emerging technologies for effective and durable control of crop insect pests and some of the challenges that they may pose.

Registration & Refreshments08:00-08:50

Global Engage Welcome Address and Track Chair's Opening Remarks08:50-09:00

MICROBIOME FOR AGRICULTURE CONGRESS ASIA 20196TH PLANT GENOMICS & GENE EDITING CONGRESS ASIA 2019

09:00-09:30

KEYNOTE ADDRESS:PEER SCHENKProfessor, The University of Queensland, AustraliaBeneficial Plant-Microbiome Interactions in Changing EnvironmentsPlant diseases and soil nutrient deficiencies cause major agricultural losses world-wide that

affect food security for a still growing human population. Beneficial soil microorganisms play a major role in plants for nutrient acquisition, disease suppression and abiotic stress resilience. Using a combination of classical microbiology, analytical chemistry, 16S rRNA amplicon sequencing, metatranscriptomics and clone-library screening, we identify compounds and genes associated with rhizosphere plant-microbe interactions. This led to new biocontrol- and plant-growth promoting bacteria, endophytic bacteria that alleviate salinity stress, new compounds for biocontrol of Phytophthora spp. and Fusarium and plants with altered signalling and exudates showing resistance against pathogenic bacteria, fungi, viruses and nematodes. Future yield increases may be expected from four approaches: 1. Optimising and customising beneficial plant-microbe interactions2. Identifying key bioactive compounds underlying plant-microbe interactions and formulating them into

new products,3. Breeding microbe-optimised crops more amenable to beneficial plant-microbiome interactions, 4. Engineering plant growth-promoting microbiomes by specifically treating plants and/or soil.

Global Engage Welcome Address and Track Chair's Opening Remarks08:50-09:00


09:30-10:00

KEYNOTE ADDRESS:HUIMING ZHANGPrinciple Investigator, Shanghai Center for Plant Stress Biology, Chinese Academy of Sciences, China The Arabidopsis Growth-Promotion 1 (GP1) is Required for Proper Plant Interactions with Beneficial Rhizobacteria

Plant growth-promoting rhizobacteria (PGPR) are soil microorganisms capable of enhancing plant vigor. Many PGPR strains have been identified, but the molecular network that controls plant responses to PGPR remains largely unexplored. In this study, our genetic screening isolated an Arabidopsis mutant, named as gp1 for Growth-Promotion 1, which is defective in showing growth promotion triggered by a beneficial rhizobacterium. In this talk, I will present our investigations of GP1 in mediating plant interactions with beneficial rhizobacteria.

09:30-10:00

KEYNOTE ADDRESS:BAOHONG ZHANGHTCAS Distinguished Professor, East Carolina University, USAMicroRNA-regulated Mechanisms and it’s Application for Improving Crop Tolerance to Abiotic Stress

MicroRNAs (miRNAs) are an extensive class of endogenous, small RNA molecules that sit at the heart of regulating gene expression in multiple developmental and signalling pathways. Recent studies have shown that abiotic stresses induce aberrant expression of many miRNAs, thus suggesting that miRNAs may be a new target for genetically improving plant tolerance to certain stresses. These studies have also shown that miRNAs respond to environmental stresses in a miRNA-, stress-, tissue-, and genotype-dependent manner. During abiotic stress, miRNAs function by regulating target genes within the miRNA-target gene network and by controlling signalling pathways and root development. Generally speaking, stress-induced miRNAs lead to down-regulation of negative regulators of stress tolerance whereas stress-inhibited miRNAs allow the accumulation and function of positive regulators. Currently, the majority of miRNA-based studies have focused on the identification of miRNAs that are responsive to different stress conditions and analysing their expression profile changes during these treatments. This has predominately been accomplished using deep sequencing technologies and other expression analyses, such as quantitative real-time PCR. In the future, more function and expression studies will be necessary in order to elucidate the common miRNA-mediated regulatory mechanisms that underlie tolerance to different abiotic stresses. The use of artificial miRNAs, as well as overexpression and knockout/down of both miRNAs and their targets, will be the best techniques for determining the specific roles of individual miRNAs in response to environmental stresses.

CONGRESS SCHEDULE

PLANT OMICS-DEVELOPMENT, APPLICATION & TRENDSADVANCES IN PLANT ‘OMICS TECHNOLOGY MICROBIOME FOR AGRICULTURE

Morning Refreshments / Poster Presentations / One-to-One Meetings10:30-11:30


DAY 1 MONDAY 1ST JUNE 2020

11:30-11:55

11:30-11:55

WALLACE LIMProfessor, Hong Kong University, Hong Kong New Tools to Study Dynamic Changes of Energy Molecules in Planta Since 1969, it has been believed that ATP can

be translocated from cytosol into mature spinach chloroplasts to aid carbon fixation and to provide energy to chloroplasts at night. By introducing a fluorescent ATP sensor into cytosol and chloroplast of Arabidopsis thaliana, the dynamic changes in ATP concentrations in these two compartments can be studied in planta. We found that only chloroplasts isolated from young seedlings, but not mature plants were able to uptake exogenous ATP. Why our observations are contradictory to the earlier reports? In this talk, I am going to provide an explanation, and illustrate how our findings could revise our understandings on chloroplast bioenergetics in the day and the night. Our recent data on the application of NADPH and NADH/NAD+ ratio sensors in Arabidopsis thaliana will also be presented. These sensors can also be used in various plant omics studies.

11:30-11:55

GRAHAM KING Professor, Southern Cross University, Australia Understanding and Augmenting Recombination for Crop ImprovementThe rate at which conventional, marker assisted

or genomic selection of crops can introgress or generate new combinations of desirable alleles remains constrained by the rate and distribution of crossover (CO) events in meiotic recombination. The past decade has seen considerable advances in our understanding of the fundamental processes, proteins and genomic features that contribute to variation in CO frequency. In addition to observed factors such as heterozygosity, heterochiasmy (parental bias) and the distribution of epigenetic marks including DNA methylation, it is apparent that recombination may be affected by a number of specific environmental factors. This presentation will provide an overview of how a deeper understanding of genetic factors, genomic organisation and interaction with the environment could be harnessed to augment current generation and selection from recombinant populations.

RUSSELL RODRIGUEZCEO & Affiliate Professor, Adaptive Symbiotic Technologies & The University of Washington, USAMitigating Impacts of Climate Change in Agriculture with Symbiotic Fungal Endophytes

One of the greatest needs in agriculture is to mitigate impacts of abiotic (drought, temperature, salinity) stresses on crop plants. Efforts over the last 40 years to generate stress tolerant crops via breeding or genetic modification have not been very fruitful because the underlying strategies assumed plants adapt themselves to stresses. However, plants in high-stress habitats are adapted to environmental stresses through symbioses with fungal endophytes. Without the fungal partners, plants are no more adapted to stress than agricultural crops. Based on observations of native plant adaptation, Adaptive Symbiotic Technologies developed BioEnsure®, a novel seed treatment comprising fungal endophytes that adapt plants to temperature, salinity, drought and nutrient stress. This technology has been field tested since 2012 and was commercialized in 2017 and applied to 230,000 acres in the USA. In 2018 and 2019 BioEnsure was sold in the USA, Argentina, Australia and India covering 900,000 and 2,000,000 acres, respectively.

11:55-12:20

11:55-12:20

JIANBING YANProfessor, Huazhong Agricultural University, ChinaKnowledge-driven targeted CRISPR/Cas9 mutagenesis streamlines trait gene identification in maize

Maize is one of the most important crops in the world. However, few agronomically important maize genes have been cloned and used for trait improvement, due to the complex genome and genetic architecture. Here we integrated multiplexed CRISPR/Cas9-based high-throughput targeted mutagenesis with genetic mapping and genomic approaches to successfully knock-out 743 candidate genes corresponding to agronomic and nutritional traits. After low-cost barcode-based deep sequencing, 412 precisely-edited sequences covering 118 genes were identified from individuals showing clear phenotypic changes. This mutant profile was parallel with that in human cell lines and highly predicable. An unexpectedly frequent homology-directed repair through endogenous templates was observed and likely caused by the proximate genome

11:55-12:20

HONG-HWA CHENDistinguished Professor, National Cheng Kung University, TaiwanA HORT1 Retrotransposon Insertion in the PeMYB11 Promoter Causes Harlequin/Black flowers in Phalaenopsis Orchids

The harlequin/black flowers in Phalaenopsis orchids contain dark-purple spots and various pigmentation patterns. The harlequin flowers were named for their resemblance to a clown face with painted black spots. For this special color of harlequin flowers, we analyzed the phenotype by microscopy, high-performance liquid chromatography, molecular technology, and whole-genome study to obtain an overall understanding of the black color formation in Phalaenopsis. Most mesophyll cells of harlequin flowers showed extremely accumulated anthocyanins as well as a high expression of PeMYB11 as the major regulatory R2R3-MYB transcription factor for regulating the black color production. A retrotransposon, named Harlequin Orchid RetroTransposon 1 (HORT1), was identified and inserted in the upstream regulatory region of

JAMES WHITEProfessor, Rutgers University, USAMicrobiome Augmentation and Stimulation as Strategies to Improve Crop Growth and Health• Natural seed microbiomes

• How microbiomes work in seedlings• Loss of native microbiomes from seeds in major crops• The strategy of microbiome augmentation• The strategy of biostimulation of a plants native microbiome

Solution Provider PresentationFor sponsorship opportunities, please contact Reuben Raj

[email protected] / +603 2117 5193

10:00-10:30



10:00-10:30

mailto:reuben%40global-engage.com?subject=


CONGRESS SCHEDULE

11:55-12:20

11:55-12:20

conformation. These results together indicated that the integration of forward- and reverse- genetics promises rapid validation and cloning of important agronomic genes for crops with complex genomes, and provided guidance for further optimizing high-throughput CRISPR experiments in plants.

11:55-12:20

PeMYB11. Dual luciferase assay showed that HORT1 indeed enhanced PeMYB11 expression. Furthermore, the presence of the HORT1 retrotransposon explains the high mutation rates resulting in many variations of pigmentation patterning in harlequin flowers of Phalaenopsis orchids.

Continued



12:20-12:50



12:20-12:50



12:20-12:50

Lunch / Poster Presentations / One-to-One Meetings12:50-13:50

13:50-14:15

13:50-14:15

JIA-LONG YAOSenior Scientist, New Zealand Institute for Plant and Food Research, New ZealandGenome-Wide Allele-Specific Expression Analyses in Apple

Allele-specific expression (ASE) affects phenotypes and evolution. However, the mechanisms regulating ASE are not very clear, in particular in perennial woody plants. This presentation will show how to identify thousands of ASE genes in apple by mapping RNA-seq reads of diploid plants to reference genomes assembled with haploid plants. Then, transposable elements (TEs) allele-specifically located in the promoter regions were found to be the major cause for ASE by comparing the genomic sequences of two alleles identified from two different haploid reference genomes. Two of such ASE genes encoding MYB transcription factors were found to underlie apple flower petal colour evolution. Our study demonstrated the importance of TEs in regulating ASE at a genome-wide scale and presented a novel method for rapid identification of ASE genes and their regulatory elements in plants.

13:50-14:15

PRASANNA BHATData Stewardship Lead, Bayer Crop Science, IndiaApplications and Impact of Artificial Intelligence in AgricultureArtificial Intelligence (AI) is disrupting many

industries and expected to have huge impact in Agriculture. Need for innovation in Agriculture is ever increasing due to rapid changes in climate, exponential increase in population, dwindling water and soil resources coupled with reduced land available for cultivation. AI innovations in crop harvesting, pest and disease detection and yield predictions have proven to be highly beneficial to both large scale and small holder farmers across the world. Examples of current and future AI applications to forecast weather, improve crop health, pest and disease management, yield improvement, harvesting, post-harvest crop management will be discussed in this talk. Bayer initiatives to use AI in Agriculture research and development ultimately to enable smallholder and larger farmers in Asia and across the world will also be discussed.

CHAO-YING CHENProfessor, National Taiwan University, TaiwanRoot Colonization of Beneficial Bacteria Important for Plant Disease Resistance Enhancement

Plants interact with rhizobacteria through the roots, which secrete a mixture of compounds as root exudates, comprising sugars, organic acids, proteins, amino acids, fatty acids and secondary metabolites. Some root exudate constituents are supposed to play critical roles in the recruitment of beneficial rhizobacteria and plant disease resistance enhancement. Chemotaxis, glucose uptake and utilization are important for root colonization of beneficial bacteria. Sensing attractants and guiding bacteria toward attractants influence bacterial chemotactic behavior and the following colonization ability. Enhancement of plant disease resistance could be due to successful root colonization by beneficial bacteria, which creating mutual profitable relationship with plants.

14:15-14:40

14:15-14:40

OMID ANSARIHead of Research, Ecofibre Ltd and Ananda Hemp Ltd, AustraliaApplication of XP-GWAS in Cannabis Breeding to Fast Rack Varietal Development with Specific Cannabinoid Profile

Cannabis produces a class of medically valuable secondary metabolites known as cannabinoids. The cannabinoid alkyl group is an important pharmacophore which regulates therapeutic activity. Restructuring metabolic networks using recombinant DNA methods could yield novel alkyl chemical phenotypes (chemotypes) for pharmaceutical end-use. However, the genetic determinants responsible for alkyl side-chain are undefined. An extreme phenotype genome-wide association study (XP-GWAS) was performed to identify

14:15-14:40

MEE-LEN CHYEWilson and Amelia Wong Professor in Plant Biotechnology, School of Biological Sciences, University of Hong Kong, Hong KongUsing ‘Omics Technology to Understand the

Role of Acyl-CoA-Binding Proteins in Plant Lipid MetabolismOmics technology has been increasingly applied to investigate plant lipid metabolism. In plants, lipids are important because they form components of cellular membranes, surface structures, storage compounds, and defense and signaling molecules. We have identified a family of acyl-CoA-binding proteins (ACBPs) that bind long-chain acyl-CoA esters. These ACBPs are conserved at the acyl-CoA-binding domain and are distributed across eukaryotes and some eubacterial species. In both Arabidopsis and rice, six ACBPs have been identified.

RAJEEV K. VARSHNEYProfessor & Director, Centre of Excellence in Genomics & Systems Biology, India Microbiome Research for Enhancing Crop Productivity with Greater Environmental Sustainability

Plants have complex association with soil microbiota that are beneficial for plant growth, nutrition, and stress resilience. Application of microbiome in the field for sustainable agriculture requires understanding of the complexity and ecological behavior of natural microbiota. Systems Biology approach at ICRISAT employs metagenome profiling of soil microbiome of legume crops from different agricultural environments that would be analyzed for assessing the functional diversity of environmental microbial communities. In addition, metabolite profiling of plant exudates






CONGRESS SCHEDULE

14:15-14:40

14:15-14:40

alkyl chemotype polymorphisms using a diversity panel selected from Ecofibre genebank. Sequencing of extreme alkyl chemotype pools revealed a previously identified cannabinoid locus as well as a series of chemotype-associated loci. Twenty-two polymorphs, including two nonsynonymous substitutions, were identified across the length of this gene. This is one of the first applications of XP-GWAS on a highly heterozygote and obligate outcrossing plant genus.

14:15-14:40

To investigate the function of ACBPs in plants, investigations were carried out using reverse genetics, overexpression lines and omics technology. Results of our studies on ACBPs using omics technology will be discussed.

and soil rhizochemicals will be integrated into a systems modeling that would help elucidate composition, function, and interactions of microbial communities and to link these to environmental processes. These microbial community includes those with plant growth promoting properties associated with resource mobilization and disease-suppression, directly influencing plant growth. This would pave way for the development of bio-fertilizers or synthetic communities. In addition, identification of traits associated to recruitment of beneficial microbial community for defense against soil-borne diseases, tolerance to abiotic stresses such as drought and salinity and improved nutrient uptake for future crop breeding programs become vital. All these endeavors could lead to a reduce dependency on chemical fertilizer usage or towards a fertilizer-free agriculture.



14:40-15:10



14:40-15:10



14:40-15:10

16:10-16:30

16:10-16:30

EARLY CAREER RESEARCHER PRESENTATION:JER-YOUNG LINAssistant Research Fellow, Academia Sinica, TaiwanDNA Methylation in CropDNA methylation may be involved in many important developmental processes of plants, for example, imprinting, flowering, etc. In this presentation, I will focus the new

evidence of the role that DNA methylation may play in a specific developmental process in crop.

EARLY CAREER RESEARCHER PRESENTATION:

Afternoon Refreshments / Poster Presentations / One-to-One Meetings15:10-16:10



16:35-15:00

16:35-15:00

CATUR HERMANTOResearcher & Head of Indonesian Vegetable Research Institute, Agency for Agricultural Research and Development, IndonesiaThe Role of Microbiome in the IPM Vegetable in Indonesia: Approaches and ChallengesIndonesia is known for its high diversity, including microbiome. The awareness of

its existence and its potential usage is continued to increase in the recent years. In this review we provide an overview regarding the current status of the most recent microbiome research and its application in Integrated Pest Management of vegetable in Indonesia. This issue is particularly important due to the growing consciousness of the sustainable use of natural resources and the increasing of public concern on healthy vegetable food. We aim to investigate the microbiome potential applications, its implementation approaches and challenges in an integrated vegetable management system to improve the sustainability of resources usage.

Chair's Closing Remarks / End of Day 116:55-17:00

VAN T. LUUHead of Genome Editing Team & Research Associate, Max Planck Institute for Plant Breeding & University of Düsseldorf, GermanyEngineering Rice Resistance Against Bacterial Leaf Blight Using CRISPR/Cas Genome Editing

Bacterial leaf blight, caused by Xanthomonas oryzae pv. Oryzae (Xoo), is a devastating rice disease in Asia and Africa that causes major loss and instability in large parts of the world. The development of novel rice breeding material with durable and broad-spectrum resistance against Xoo is the most effective, economical, and sustainable way to control this disease. In previous studies, three rice sucrose transporter-encoding genes including OsSWEET11, OsSWEET13 and OsSWEET14 were found to be induced by the Xoo transcription activator-like (TAL) effectors. Ectopic activation of these SWEET sugar efflux transporters likely provides nutrients to the pathogen, allowing it to amplify and cause the disease. Up till now, six TAL effectors binding elements (EBEs) in SWEET promoters were found: one in the SWEET11 promoter (PthXo1), one in the SWEET13 promoter (PthXo2), and four in the SWEET14 promoter (TalC, Tal5, PthXo3, AvrXa7). In this study, we use genome editing tools (CRISPR/Cas9 and Cpf1) to edit these EBEs in order to prevent binding of Xoo TAL effectors and the activation of SWEET genes, leading to broad-spectrum resistance in rice against Xoo.




CONGRESS SCHEDULE

09:00-09:30

KEYNOTE ADDRESS:CHRISTOPHER CULLISFrancis Hobart Herrick Professor of Biology, Case Western Reserve University, USAMechanisms of Genomic Evolution in PlantsThe genomes of plants are highly variable, even within a species. The mechanisms by

which these variations have arisen are still unclear. However, when the overall genome composition of a species (the pan genome) is considered, the origin of the sequences that are not shared by all the members of the species need to be explained. Are these DNA sequences a relic of an ancestral genome, or are they capable of being 'synthesized' within genotypes? The rapid variation of the genome in flax in response to the environment provides a window into possible mechanisms by which new sequences, perhaps containing new genes, can arise de novo. These regions are not just random assemblies of nucleotides, but are specific fragments that are present elsewhere in the germplasm. The data are consistent with there being a mechanism that can result in specific new sequence information arising, perhaps in response to environmental stimuli.

Refreshments08:00-08:50

2ND MICROBIOME FOR AGRICULTURE CONGRESS ASIA 20207TH PLANT GENOMICS & GENE EDITING CONGRESS ASIA 2020

09:00-09:30

Morning Chair Opening Remarks08:50-09:00 Morning Chair Opening Remarks08:50-09:00

KEYNOTE ADDRESS:GREGORY SWORDProfessor & Charles R. Parencia Chair in Cotton Entomology, Texas A&M University, USA Manipulating the Microbiome Around Wheat Roots: Lessons and ChallengesBeneficial fungal endophytes can confer protection to plants from a variety of stressors

and improve yields in major agricultural crops. Facultative fungal endophytes originally isolated from cultivated cotton (Gossypium hirsutum) have been shown to have a number of important ecological, physiological and agronomic effects on the plant. Using simple seed treatment protocols, individual cotton plants can be inoculated with fungi with resulting phenotypic effects detectable across the entire growing season. The targeted manipulation of fungi associated with cotton can mediate resistance to multiple stressors including insects, nematodes and drought, with significant positive impacts on plant performance and yields in the field. Having demonstrated that the application of plant-associated fungi to cotton can impact plant responses to multiple stressors, ongoing work is focused on the mechanisms by which the fungi exert these effects in cotton, and comparative analyses of their effects in other plants.

DAY 2 TUESDAY 2ND JUNE 2020

09:30-10:00

09:30-10:00



10:00-10:30



10:00-10:30


CHIU-CHUNG YOUNGNational Chair Professor & Academician, Academia Sinica & National Chung Hsing University, TaiwanResearch and Application of Soil Microorganisms in AgricultureModern agricultural production with a large amount of chemical fertilizer and pesticide

application leaded to the deterioration of the environment, soil degradation and increasing disease problems. In order to solve the problems, the biodiversity of microorganisms play an important role for protecting soils. In many years’ research, microorganisms have been shown to reduce the use of chemical fertilizers, and are more substantial for the benefits of intangible conservation of soil. The application of soil microbes has the effect of promoting crop growth, competing and inducing reduction of pests and diseases, and further discovering that soil microbes can promote plant drought resistance, heat resistance, salt resistance and iron and sulfur absorption under extreme climate change. We also have established new microbial-enzymes technology to accelerate the production of organic fertilizers within 3 hours instead of 3 months composting method.

STEVE SWAINResearch Director for Traits, CSIRO Agriculture & Food, AustraliaCrop Genetics and Synthetic TraitsCSIRO Agriculture and Food conducts breeding and pre-breeding in a range of key global and Australian crops, by applying novel breeding technologies, such as RNAi

and data-driven selection methodologies, and by developing high value GM and non-GM traits. In cereals, this includes pre-breeding to support the development and commercialisation of value-add traits such as wheat and barley with high levels of amylose (for improved gut health), barley for coeliac-friendly beer, disease markers that are widely used in the breeding of Australian and international varieties, and germplasm with validated adaptation and productivity traits. In cotton, we combine conventional breeding with GM traits for pest control and to improve yield under both irrigated and rain-fed conditions. We have also developed, and in several cases successfully commercialised, a number of GM biotech traits: canola with high levels of Omega-3 fatty acids for a range of health benefits, Safflower with very high levels of oleic acid for industrial uses, apples with reduced browning, and Bt cowpea for protection of yield from insect pests.

Morning Refreshments / One-to-One Meetings / Poster Presentations 10:30-11:30



CONGRESS SCHEDULE

11:30-11:55

11:30-11:55

11:30-11:55

LEE HICKEY Senior Research Fellow, University of Queensland, Australia ExpressEdit Technology: Taking CRISPR out of the Lab

We need more robust and productive crops to feed a rapidly growing human population. However, traditional plant breeding techniques are slow and it can take more than a decade to develop an improved crop variety. To fast-track crop improvement, we are developing an innovative system called ‘ExpressEdit’ that combines state-of-the-art ‘speed breeding’ and the latest genetic engineering technology. The rapid lab-free genome editing system will dramatically reduce the timeframe to improve disease resistance and drought tolerance, which will assist plant breeders to assemble more productive crop varieties in the face of fluctuating climatic conditions and rapidly evolving pathogens.

CHUN-MING ERIC HUANGChair Professor, Department of Biomedical Sciences and Engineering, National Central Taiwan University, TaiwanDevelopment of Probiotic Rice and Meats

Microbiome approaches are applied for development of probiotic rice and meats by colonizing functional microbes on plant roots or animal intestines in their early life. Rice grown with B. thuringiensis increased the amounts of GABA which reduced the anxiety in mice. Chicken fed with beneficial microbes in the first month of their life have lower fat and higher proteins in their muscles. Agriculture Microbiome approaches by colonizing microbes in early life provide new modalities for developing probiotic plants and animals.

11:55-12:20

11:55-12:20

JIANG LI XIProfessor & Department Head, Zhejiang University, China A Sino-German Joint Effort to Edit Seed Fatty Acid Reducers for Higher Seed Oil Content in Oilseed Rape (Brassica napus)

Rapeseed (Brassica napus L.), is an important source of vegetable oil in many parts of the world. It is grown and harvested mainly for its seeds which contain a large proportion of oil in the form of triacylglycerols (TAGs). The level of seed oil content (SOC) and the composition of its fatty acids determine the quality and economic value of this crop. To elevate SOC level of rapeseed, immense efforts have been made mostly by gaining the function of genes critical on the lipid biosynthesis pathway. However, little effort was put in preventing the synthesized lipids from decomposing in the course of seed maturation. In this study, we present an overview of GDSL gene distribution across the rapeseed genome and their expression in developing seeds. In particular, we investigated the assocations between the allelic variations of BnSFARs and SOC in a world-wide collection of rapeseed germplasm. We provided a suceessful example to increase rapeseed SOC by pyrimiding BnSFAR knock-out alleles and editing BnSFARs using CRISPR-Cas9. We demonstrate that loss of functions in BnSFARs increases rapeseed SOC without adverse effect on seed.

11:55-12:20

HAYDE C. FLANDEZ-GALVESAssistant Professor, University of the Philippines Los Banos, Philippines Coconut Genetics and Genomics: Updates and Opportunities Towards a Vibrant Coconut Industry

Philippines is the second world supplier of coconut by-products. The region has been threatened with devastating production constraints ranging from agro-climatic and weather calamities to widespread prevalence of disease/insect pests outbreaks, and increasing existence of non-bearing and senile palms in coconut plantations. To facilitate the development of resilient and outstanding varieties, advancements in genomics and related technologies are harnessed towards their effective integration in a coconut breeding program. Coconut whole genome sequence reads were generated using ‘Catigan Green Dwarf’ (CATD) as the reference variety and combinations of advanced next generation sequencing (NGS) platforms. High quality genome assembly was generated and used to characterize adaptation and economically important genes i.e. candidate resistance genes, drought tolerance, productivity, and coconut oil related genes. Genome-wide and gene specific DNA markers are generated. A user-friendly database is being developed to house the coconut genome sequence data, gene/trait models and associated DNA markers.

JAE SU KIMProfessor, Chonbuk National University, KoreaFungal Epizootiology in Insect Pest ManagementThere are many challenges in pest management, such as ecological toxicity of pesticides, pest

resistance and strong pesticide regulation. To overcome these issues, global chemical companies have actively merged and acquired biopesticide companies until 2010, but still strategy to develop successful biopesticides is not fully established. Fortunately, many research groups are working on the advanced technology to support the biopesticide R&D. From the recent registration of biopesticides, one major interesting trend is to development of fungal insecticides, Bioceres® of Anatis Bioprotection, BioAct Prime® of Bayer, two B. bassiana products of Arysta Life Science, Chongchaesak® of FarmHannong (Bb ERL836), and Broadband® & Velifer® of BASF. All the fungal insecticides could be combined with chemical spray program in a crop protection spray calendar, which is probably followed by successful application of fungal biopesticides and production of safe foods. In near the future, biopesticide can be an excellent control agent in smart farming.



SATEESH KAGALEResearch Officer & Team Leader, National Research Council, CanadaTranscriptional Dynamics During Meiosis in Wheat

Understanding the molecular basis of chromosome pairing and recombination during meiosis, particularly in polyploid crops such as wheat, is key to developing strategies for directly modulating recombination to expedite the development of novel germplasm. To facilitate comprehensive analysis of gene regulation during meiosis, we have analyzed the mRNA, smallRNA, long non-coding RNA profiles of meiocytes collected from interphase, prophase and metaphase stages of meiosis in wheat (Chinese spring). I will discuss the dynamic patterns of gene expression during meiosis and its implications for the modulation of recombination in wheat.

EMERGING TECHNOLOGIES AND OPPORTUNITIES IN CROP DEVELOPMENTGENE EDITING FOR CROP IMPROVEMENT MICROBIOME FOR AGRICULTURE



12:20-12:50



12:20-12:50


[email protected] / +603 2117 519312:20-12:50




CONGRESS SCHEDULE DAY 2 TUESDAY 2ND JUNE 2020

12:50-13:15

POSTER COMPETITION WINNER TALK

Lunch / One-to-One Meetings / Poster Presentations 13:15-14:15

14:15-14:40

14:15-14:40

EARLY CAREER RESEARCHER PRESENTATION:JO-WEI HSIEHPhD Student, Academia Sinica, TaiwanDynamics of Methylome and Transcriptome

during Rice TransformationThe transgenic rice generated with Agrobacterium-mediated transformation (AMT) and particle bombardment (PB) often carries both genetic and epigenetic variations. It is unclear what leads to such variations. We hypothesized that transformation methods and the individual components of transformation may have differential influences on rice epigenome. Here, we compared the transcriptomes and methylomes for transgenic rice between different combination of transformation components, and between AMT and PB. We found that tissue culture had a profound impact on both gene expression and DNA methylation. Nevertheless, less than 30% of differentially methylated regions were affected by AMT and PB. The differential methylated and expressed genes affected by AMT or PB largely associated with development, response, transcription, secondary metabolites, and cell division. Our comprehensive study may shed light on the variations observed in transformation process due to individual components and the transformation techniques.

14:15-14:40

EARLY CAREER RESEARCHER PRESENTATION: XIAOLIN ZENGPost-Doctor, Shanghai Center for Plant Stress Biology Chinese Academy of Sciences, China

HDACs & PRC2 function in concert to repress FLC expression and promote flowering in ArabidopsisPolycomb repressive complex 2 (PRC2), which catalyzes the repressive histone 3 lysine-27 trimethylation (H3K27me3) to repress sets of genes expression, plays key roles in phase transitions in plants and animals. PRC2 is critical for the developmental transition to flowering in Arabidopsis. FLOWERING LOCUS C (FLC), a potent floral repressor, is subjected to complex and delicate regulation. Here, we show that HISTONE DEACETYLASE 9 (HDA9)-mediated H3K27 deacetylation is required for PRC2-mediated H3K27 trimethylation in Arabidopsis. And the epigenome readers VP1/ABI3-LIKE 1 (VAL1) and VAL2 recruit HDA9 and PRC2 to FLC locus to mediate H3K27 deacetylation and subsequent trimethylation at this residue to repress FLC expression. Our study uncovers a previously-undescribed role of HDA9 in PRC2-mediated H3K27me3 and for FLC repression and flowering-time regulation.

EARLY CAREER RESEARCHER PRESENTATION:

14:40-15:05

14:40-15:05

14:40-15:05

GLENN THORLBYResearch Leader, Scion, New ZealandBiotechnology for Planted Conifer ForestsIncreasing global population coupled with transition to a sustainable bioeconomy is

predicted to lead to growing pressure on forests to deliver timber, energy, chemicals, and food whilst maintaining their role as reservoirs of biodiversity. Planted forests provide a means to sustainably increase the production of forest products and reduce pressure on natural forests. The large stature of forest trees, long periods of juvenile (pre-reproductive) growth, and delayed expression of traits results in breeding programmes being long and expensive. Biotechnology, particularly new breeding technologies such as gene editing will allow rapid and precise improvements.The potential benefits and challenges of integrating biotechnology into forest tree breeding will be described. The development of conifer gene editing tools and their use to engineer sterility as a solution to the social and environmental damage caused

CHIA-HSIN TSAIResearcher, bacterial Disease Laboratory, Taiwan Agricultural Research Institute, TaiwanGenomic Sequencing, Assembly and Comparison of Pseudomonas viridiflava Isolates from Different Hosts in Taiwan

Pseudomonas viridiflava is a seed-borne bacterial pathogen with a wide host range. This pathogen causes tomato pith necrosis, cucumber bacterial white spot, and cruciferous bacterial leaf blight in Taiwan. To examine the genetic variability, several P. viridiflava isolates from different hosts were collected for next-generation sequencing (NGS). The sequencing data was assembled using free available software including Abyss, SOAPdenovo, and Velvet. Genes of assembled sequence were predicted using RAST (Rapid Annotations using Subsystems Technology). The predicted gene sets of Taiwan isolates were compared against the foreign isolates. Most Taiwan isolates (#7) showed significant different from foreign isolates (#2) in BLASTn analysis. To understand the variability of Taiwan isolates, partial


UMA PRIYA KUPUSAMYHead of Microbiology Section, Department of Chemistry. Malaysia Ministry of Energy, Science, technology, Environment and Climate Change, Malaysia

Silencing Of β-1,3-glucanase gene In Transgenic Rice Plants Confers Resistance To Rice Brown PlanthopperRice is one of the world’s most important food crop and staple food for nearly half of the world’s population. The widespread damage caused by Brown planthopper (BPH) is one of the main biotic constraints causing substantial crop losses and affecting global rice production. Thus, plant-mediated RNA interference for BPH control in transgenic plants to enhanced resistance has been widely exploited. In this study, the susceptible rice (TN1) was transformed with double-stranded RNA interference (dsRNAi) construct to silence the β-1,3-glucanase gene. β-1,3-glucanase play important roles in plant defence against pathogen attack and it is induced by BPH in susceptible rice plants. The insect bioassays indicated this

CONGRESS SCHEDULE

15:30-15:55

Closing Remarks15:55-16:05


15:05-15:30

15:05-15:30

KEQIANG WUProfessor, National Taiwan University, TaiwanFunctions of Histone Deacetylases in Plant Development and Gene SilencingReversible histone acetylation and deacetylation

at the N-terminus of histone tails play a crucial role in regulation of eukaryotic gene activity. Acetylation of core histones usually induces an “open” chromatin structure and is associated with gene activation, whereas deacetylation of histone is often correlated with “closed” chromatin and gene repression. Histone deacetylation is catalyzed by histone deacetylases (HDACs). A growing number of studies have demonstrated the importance of histone deacetylation/acetylation in genome stability, transcriptional regulation and development in plants. Our recent studies indicate that HDACs interact with various chromatin remolding factors and transcription factors involved in transcriptional repression in multiple developmental processes and pathways in plants. The function of HDACs in gene silencing and plant development will be discussed.

PAO-YANG CHENAssociate Professor, Academia Sinica, TaiwanMethylome Dynamics in Termitomyces eurrhizusTermitomyces eurrhizus is an edible fungus which has fruiting body produced through symbiotic

association with fungus-growing termites. While the mystery of fruiting in another basidiomycete Coprinopsis cinerea is known it is never clear with T. eurrhizus, possibly due to its complicated symbiotic relationship and the environmental conditions implying epigenetic co-regulation. Our long-term goal is to understand the fruiting dynamics and life cycle of T. eurrhizus through molecular profiling. We examined genome wide DNA methylation and transcription for 5 critical stages of T. eurhizus. By comparing to C. cinerea and S. commune we identified 15 homologous fruiting genes in T. eurrhizus upregulated at specific timepoints during the fruiting process. We identified one specific tissue displaying an unique pattern of DNA methylation likely to associate with the fruiting dynamics. Our work reveals an important local fungus-termite system, with a great potential to decipher its fruiting mystery and to benefit fungiculture.

14:40-15:05

14:40-15:05

14:40-15:05

by non-native invasive conifer trees that have spread from planted forests in New Zealand will used to illustrate this.

sequence of three housekeeping genes gyrB, rpoB and rpoD were extracted for multilocus locus analysis (MLSA). The P. viridiflava isolates from different hosts in Taiwan

JENNIFER ANN HARIKRISHNADirector & Professor, Centre for Research in Biotechnology for Agriculture & University of Malaya, MalaysiaThe Evolving Regulatory Environment and Barriers to Successful Deployment of Exogenously Applied Double Stranded RNAsRecent advancements in new plant breeding techniques, such as exogenously applied double stranded RNAs, offer many opportunities for crop protection and trait improvement. While the external application of double stranded RNA molecules has been widely researched in various crop systems, less has been discussed about non-technical challenges that may slow down the pace of technology

development. This presentation will draw on research into regulatory and legislative texts for biosafety, global patent landscape of the technology domain, and public perceptions towards genetically engineered crops. Aspects presented will include the importance of framing appropriate legal basis for the regulation of externally applied double stranded RNAs, the suitability of implementing a process-based regulatory trigger for the technology, the range of biosafety rulings that are being developed or have been made governing the use of the technology in open fields, the importance of adoption of appropriate licensing mechanisms that can navigate the intellectual property issues surrounding the technology, as well as the opportunity to frame the technology as non-GMO to influence public acceptance of the technology.

gene expressed in transgenic rice plants has significantly decreased survival of BPH and has a significant deleterious effect on the overall fecundity of BPH. BPH survival on the transgenic plants declined to a mean of 3.0 insect /plant compared to a mean of controls 5.7 insect/plant over a 22-day bioassay (initial inoculam 10 insects /plant).

14:40-15:05

AKMAR ABDULLAHProfessor in Plant Molecular Biology, University Putra Malaysia, MalaysiaCRISPR/dCas9 System for Producing Heat Stress Tolerant Plants through Targeted Transcriptional Activation

CRISPR/dCas9 system which can recruit various enzymes and tags to specific genomic sites offers great potential for crop improvement. Through recruitment of transcriptional effectors, CRISPR/dCas9 can enhance the activity of a specific gene without introducing irreversible DNA-damaging mutations. We study transcriptional activation in red cabbage protoplasts using CRISPR/dCas9 through delivery of preassembled ribonucleoprotein complexes (RNPs) composed of purified recombinant enzyme dCas9 fused to transcriptional activators and in vitro transcribed single guide RNAs (sgRNAs) to enhance heat stress tolerance. BolDPB3-1 transcription factor as a coactivator of DREB2A that functions specifically under abiotic stress conditions was the targeted genomic site. In this presentation, the applications of CRISPR/dCas9 in crop improvement efforts will be discussed. Strategies and challenges in developing the DNA-free targeted gene activation system utilizing the CRISPR/dCas9 system will be elaborated.


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Documents

PLATFORM FOR THE NEXT GENERATION PLANT RESEARCH 2ND MICROBIOME … · 2020. 2. 28. · 1-2 june 2020 taipei, taiwan 7th plant genomics & gene editing congress: asia 2nd microbiome