SoybeanGDB: A comprehensive genomic and bioinformatic platform for soybean genetics and genomics

文献类型： 外文期刊

第一作者： Li, Haoran

作者： Li, Haoran;Chen, Tiantian;Jia, Lihua;Wang, Zhizhan;Li, Jiaming;Wang, Yazhou;Fu, Mengjia;Chen, Mingming;Wang, Yuping;Huang, Fangfang;Jiang, Yingru;Li, Tao;Li, Yang;Yao, Wen;Wang, Yihan;Zhou, Zhengfu

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关键词： Soybean; Bioinformatic platform; Genome database; Genomic variation; Zhonghuang 13

期刊名称：COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL （ 影响因子：6.0； 五年影响因子：6.3 ）

ISSN： 2001-0370

年卷期： 2023 年 21 卷

页码：

收录情况： SCI

摘要： Soybean (Glycine max (L.) Merr.) is a globally significant crop, widely cultivated for oilseed production and animal feeds. In recent years, the rapid growth of multi-omics data from thousands of soybean accessions has provided unprecedented opportunities for researchers to explore genomes, genetic variations, and gene functions. To facilitate the utilization of these abundant data for soybean breeding and genetic improvement, the SoybeanGDB database (https://venyao.xyz/SoybeanGDB/) was developed as a comprehensive platform. SoybeanGDB integrates high-quality de novo assemblies of 39 soybean genomes and genomic variations among thousands of soybean accessions. Genomic information and variations in user-specified genomic regions can be searched and downloaded from SoybeanGDB, in a user-friendly manner. To facilitate research on genetic resources and elucidate the biological significance of genes, SoybeanGDB also incorporates a variety of bioinformatics analysis modules with graphical interfaces, such as linkage disequilibrium analysis, nucleotide diversity analysis, allele frequency analysis, gene expression analysis, primer design, gene set enrichment analysis, etc. In summary, SoybeanGDB is an essential and valuable resource that provides an open and free platform to accelerate global soybean research.(C)2023 The Authors. Published by Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).

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