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

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.

Plant phenotyping relevance

ソルガムの表現型データを標準化・統合し、可視化とアクセスを提供する研究基盤であり、表現型情報のデータ基盤として中心的です。

Code and data availability

植物フェノタイピング解析を再現する公開資産であることを、入力本文と直接リンクから確認できなかったため保留しました。

No evidence-backed public reproduction asset is currently recorded.