Domestication and improvement genes reveal the differences of seed size- and oil-related traits in soybean domestication and improvement

文献类型： 外文期刊

第一作者： Zuo, Jian-Fang

作者： Zuo, Jian-Fang;Ikram, Muhammad;Han, Chun-Yu;Zhang, Yuan-Ming;Liu, Jin-Yang;Niu, Yuan;Dunwell, Jim M.

作者机构：

关键词： Domestication; Improvement; Soybean; Seed oil content; Seed size; Genome-wide association study

期刊名称：COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL （ 影响因子：6.155； 五年影响因子：6.836 ）

ISSN： 2001-0370

年卷期： 2022 年 20 卷

页码：

收录情况： SCI

摘要： To address domestication and improvement studies of soybean seed size-and oil-related traits, a series of domesticated and improved regions, loci, and candidate genes were identified in 286 soybean accessions using domestication and improvement analyses, genome-wide association studies, quantitative trait locus (QTL) mapping and bulked segregant analyses in this study. As a result, 534 candidate domestication regions (CDRs) and 458 candidate improvement regions (CIRs) were identified in this study and integrated with those in five and three previous studies, respectively, to obtain 952 CDRs and 538 CIRs; 1469 loci for soybean seed size-and oil-related traits were identified in this study and integrated with those in Soybase to obtain 433 QTL clusters. The two results were intersected to obtain 245 domestication and 221 improvement loci for the above traits. Around these trait-related domestication and improvement loci, 7 domestication and 7 improvement genes were found to be truly associated with these traits, and 372 candidate domestication and 87 candidate improvement genes were identified using gene expression, SNP variants in genome, miRNA binding, KEGG pathway, DNA methylation, and haplotype analysis. These genes were used to explain the trait changes in domestication and improvement. As a result, the trait changes can be explained by their frequencies of elite haplotypes, base mutations in coding region, and three factors affecting their expression levels. In addition, 56 domestication and 15 improvement genes may be valuable for future soybean breeding. This study can provide useful gene resources for future soybean breeding and molecular biology research. (c) 2022 The Author(s). 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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