CSI Global Conference Announcement and SorghumBase, Nick Gladman, Andrew Olson and Doreen Ware Feb 10 at 11 AM CT
The Center for Sorghum Improvement (CSI) will host a virtual Global Conference Announcement and SorghumBase seminar on Tuesday, February 10 at 10:45 AM CT. The meeting will begin with announcements and the seminar will start at 11:00 AM CT. Nick Gladman, Andrew Olson and Doreen Ware will speak on behalf of SorghumBase. Their talk, “SorghumBase: a central KnowledgeBase for Sorghum Stakeholders,” will highlight SorghumBase as an integrated, FAIR-compliant knowledgebase and showcase major Release 10 expansions in sorghum genomes, genetic variation, and genotype–phenotype resources to accelerate translational research on agriculturally important traits.
The abstract of their presentation is provided below:
SorghumBase (https://www.sorghumbase.org) is a USDA-ARS funded database. It serves as a central KnowledgeBase for sorghum stakeholders with a focus on genomic, phenomic, and community event data. SorghumBase prioritizes the curation of data on genomes associated with valuable agricultural traits such as disease resistance, grain quality, and drought resilience. The current Release 10 includes significant updates to genome and variation data. This release incorporates 31 new genomes assembled by JGI for a total of 116 sorghum genomes and 8 outgroup species. A total of 2.5M protein-coding genes from 84 genomes were clustered into 49,445 gene family trees. The site also features over 78 million genetic variants from diverse natural and EMS populations. A subset of 41M variants have been assigned stable rsIDs by the European Variation Archive (EVA) and projected across the sorghum assemblies, including 46 expired Plant Variety Protection Act (ex-PVP) breeding lines. Interoperability continues to be strengthened via our cooperation with EMBL-EBI’s Gene Expression Atlas, Plant Reactome, BAR eFP Browser, and OZ Sorghum QTL Atlas. Other features like the Germplasm tab highlight germplasm with natural and EMS-induced protein-truncating variants in gene models. The genetic variation data have been enriched to include to over 3,000 GWAS hits from a meta-analysis of 25 studies. Together, this genotype-phenotype integration provides powerful insights for translational research. All data are accessible via a genome browser, API and FTP for download, in accordance with FAIR principles to enhance usability. SorghumBase is funded by the USDA-ARS grant 8062-21000-051-000D.
For information on this and future seminars visit the CSI seminar webpage.
