SorghumBase: a knowledgebase for sorghum genomics, phenomics, and stakeholder engagement

Gladman, Nicholas, Olson, Andrew, Kumari, Sunita, Wei, Sharon, Chougule, Kapeel, Lu, Zhenyuan, Tello-Ruiz, Marcela K, Van Buren, Peter, Kumar, Vivek, Zhang, Lifang, Olson, Audra, Kim, Catherine, Braynen, Janeen, Hayes, Chad, Xin, Zhanguo, Klein, Robert, Rooney, William, Provart, Nicholas, Pasha, Asher, O'Meara, Abigail, Shakoor, Nadia, Michael, Todd P, Harrison, Melanie, Ware, Doreen (January 2026) SorghumBase: a knowledgebase for sorghum genomics, phenomics, and stakeholder engagement. Genetics. iyaf266. ISSN 0016-6731

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Abstract

Centralizing valuable community data and resources into a user-friendly interface and accessible repository has become essential for agricultural science; embracing Findable Accessible, Interoperable, and Reusable (FAIR) principles is now standard for effective databases. SorghumBase (https://www.sorghumbase.org) is a knowledgebase designed for the sorghum research community. The SorghumBase team curates genomic, transcriptomic, variation, and phenotypic information and aggregates community events, providing rich visualizations and bulk data access. The modular framework of the database is built with open-access software to yield a robust, modifiable, and sustainable data infrastructure. Release 9 of SorghumBase includes: (i) 88 sorghum reference genomes and an updated pan-gene index, (ii) over 100 million variants have been mapped onto the 2 genomes, BTx623 and Tx2783, (iii) assignment of 41 million Reference Cluster SNP identifiers (rsIDs) from BTx623 across the pan-genome, (iv) updated gene search homology, gene expression, and germplasm visualizations and features, (v) added and standardized 234 phenotypic data from 40 community-generated GWAS studies and 148 traits from the Sorghum QTL Atlas (Oz Sorghum), (vi) improved news, funding, and a research content management system for community access and interaction, (vii) outreach materials including training documents and videos, and (viii) community engagement initiatives through training and working groups. SorghumBase serves as a hub for sorghum data and stakeholder engagement while promoting community standards to drive research and multi-omics breeding approaches.

Item Type: Paper
Subjects: organism description > plant
organism description > plant > sorghum
CSHL Authors:
Communities: CSHL labs > Ware lab
CSHL Post Doctoral Fellows
SWORD Depositor: CSHL Elements
Depositing User: CSHL Elements
Date: 19 January 2026
Date Deposited: 06 Apr 2026 12:19
Last Modified: 06 Apr 2026 12:19
PMCID: PMC13050192
Related URLs:
URI: https://repository.cshl.edu/id/eprint/42145

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