Milletdb: a multi‐omics database to accelerate the research of functional genomics and molecular breeding of millets

作者：Min Sun, Haidong Yan, Aling Zhang, Yarong Jin, Chuang Lin, Lin Luo, Bingchao Wu, Yuhang Fan, Shilin Tian, Xiaofang Cao, Zan Wang, Jinchan Luo, Yuchen Yang, Jiyuan Jia, Puding Zhou, Qianzi Tang, Chris S. Jones, Rajeev K. Varshney, Rakesh K. Srivastava, Min He, Zheni Xie, Xiaoshan Wang, Guangyan Feng, Gang Nie, Dejun Huang, Xinquan Zhang, Fangjie Zhu, Linkai Huang · 发表于：Plant Biotechnology Journal · 年份：2023 · DOI：10.1111/pbi.14136 · 被引用次数：68 · 研究领域：GABA and Rice Research、Plant Genetic and Mutation Studies、Genetics and Plant Breeding

Millets are a class of nutrient-rich coarse cereals with high resistance to abiotic stress; thus, they guarantee food security for people living in areas with extreme climatic conditions and provide stress-related genetic resources for other crops. However, no platform is available to provide a comprehensive and systematic multi-omics analysis for millets, which seriously hinders the mining of stress-related genes and the molecular breeding of millets. Here, a free, web-accessible, user-friendly millets multi-omics database platform (Milletdb, http://milletdb.novogene.com) has been developed. The Milletdb contains six millets and their one related species genomes, graph-based pan-genomics of pearl millet, and stress-related multi-omics data, which enable Milletdb to be the most complete millets multi-omics database available. We stored GWAS (genome-wide association study) results of 20 yield-related trait data obtained under three environmental conditions [field (no stress), early drought and late drought] for 2 years in the database, allowing users to identify stress-related genes that support yield improvement. Milletdb can simplify the functional genomics analysis of millets by providing users with 20 different tools (e.g., 'Gene mapping', 'Co-expression', 'KEGG/GO Enrichment' analysis, etc.). On the Milletdb platform, a gene PMA1G03779.1 was identified through 'GWAS', which has the potential to modulate yield and respond to different environmental stresses. Using the tool...