IWGSC Phase II: What’s Next for the IWGSC · •Pipeline for community generated manual...
Transcript of IWGSC Phase II: What’s Next for the IWGSC · •Pipeline for community generated manual...
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IWGSC Phase II:
What’s Next for the IWGSC
Kellye EversoleIWGSC Executive Director
IWGSC Standards & Protocols WorkshopPlant & Animal Genome Conference
San Diego, California16 January 2018
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Goal• Lay a foundation to accelerate wheat improvement• Increase profitability throughout the industry
Vision• High quality annotated genome sequence, comparable to rice• Physical map-based, integrated and ordered sequence
2005 – IWGSC Goal & Vision
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Concerted integration of resources: RefSeq v1.0
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Measuring the Impact of IWGSC RefSeq v1.0
476,595 BLAST searches22,935 downloads
Genome expression
(4)Trait genomics
(67)Genetic diversity
(18)
2017
# of papers referencing use of IWGSC RefSeq related resources since January 2017
Genome structure
(9)Genome enabled
breeding(9)
> 100 papers
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Measuring the Impact of IWGSC RefSeq v1.0
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Progress
2005Vision
• High quality annotated genome sequence, comparable to rice
• Physical map-based, integrated and ordered sequence
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Looking into the Future
• Achieve Gold Standard
Reference
• Reach beyond reference to
ensure a full genome-
sequence based toolbox
for wheat
Goal: Accelerate wheat improvement
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Vision and strategy for the IWGSC 2.0
Enhance breeding through
an increased
understanding of molecular
basis of traits and their
allelic diversity
Reference sequences with high quality functional annotations
A wheat Pan-genome representing the
worldwide diversity
Public, user-friendly, integrated
databases and tools for all users
An international, well connected and coordinated community
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From RefSeq v1.0 to IWGSC Gold Standard
+ Manual & Functional Annotation =
• Pipeline for community generated manual annotation with future annotation releases
• Functional annotation – Gene family leaders
– Applying machine learning techniques
• Closing gaps by incorporating new resources to build a IWGSC RefSeq v2.0
• IWGSC leaders: Rudi Appels, Fred Choulet…..
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IWGSC 2.0 Activities: Pan-Genome
• Develop a wheat pan-genome that represents the breadth of
worldwide wheat diversity
• Reference quality for 8-12 landraces
• Diversity panels at draft quality
• Haplotype database
• Skim-sequencing and high throughput genotyping of many lines
• IWGSC team: Etienne Paux, Sébastien Praud,…..
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IWGSC 2.0 Activities: Database
• Develop user-friendly, integrated databases and tools
• IWGSC Pan-genome Database Task Force– Fred van Ex, Bayer CropScience– Magalie Leveugle, Biogemma– Matthieu Conte, Syngenta– Michael Alaux, URGI-INRA– …….
• What tools do you want?
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IWGSC 2.0 Activities: IWGSC Exome Array• Wheat exome capture array based on IWGSC RefSeq annotation
v1.1.
• Accepting data until 31 January 2018 (see- Burkhard Steuernagel)
• Arbor Biosciences will offer enrichment reagents and an enrichment service
• Exome Team: Burkhard Steuernagel, Sreya Ghosh, SébastienPraud, Hikmet Budak, Etienne Paux…..
• Discussion: What modules would you like to see?
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IWGSC Sponsors
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Opportunity for Community Input
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Thank you for your attention!