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Identification and Validation of Candidate Genes Associated with Domesticated and Improved Traits in Soybean

文献类型： 外文期刊

作者： Zhou, Ling 1 ; Luo, Longhai; Zuo, Jian-Fang 1 ; Yang, Linfeng; Zhang, Li 3 ; Guang, Xuanmin; Niu, Yuan 3 ; Jian, 1 ;

作者机构： 1.Huazhong Agr Univ, Coll Plant Sci & Technol, Stat Genom Lab, Wuhan 430070, Peoples R China

2.Jiangsu Acad Agr Sci, Inst Agrobiotechnol, Nanjing 210014, Jiangsu, Peoples R China

3.Nanjing Agr Univ, State Key Lab Crop Genet & Germplasm Enhancement, Natl Ctr Soybean Improvement, Nanjing 210095, Jiangsu, Peoples R China

4.Nanjing Agr Univ, State Key Lab Crop Genet & Germplasm Enhancement, Natl Ctr Soybean Improvement, Nanji

期刊名称：PLANT GENOME （ 影响因子：4.089； 五年影响因子：4.972 ）

ISSN： 1940-3372

年卷期： 2016 年 9 卷 2 期

页码：

收录情况： SCI

摘要： Soybean, an important source of vegetable oils and proteins for humans, has undergone significant phenotypic changes during domestication and improvement. However, there is limited knowledge about genes related to these domesticated and improved traits, such as flowering time, seed development, alkaline-salt tolerance, and seed oil content (SOC). In this study, more than 106,000 single nucleotide polymorphisms (SNPs) were identified by restriction site associated DNA sequencing of 14 wild, 153 landrace, and 119 bred soybean accessions, and 198 candidate domestication regions (CDRs) were identified via multiple genetic diversity analyses. Of the 1489 candidate domestication genes (CDGs) within these CDRs, a total of 330 CDGs were related to the above four traits in the domestication, gene ontology (GO) enrichment, gene expression, and pathway analyses. Eighteen, 60, 66, and 10 of the 330 CDGs were significantly associated with the above four traits, respectively. Of 134 trait-associated CDGs, 29 overlapped with previous CDGs, 11 were consistent with candidate genes in previous trait association studies, and 66 were covered by the domesticated and improved quantitative trait loci or their adjacent regions, having six common CDGs, such as one functionally characterized gene Glyma15 g17480 (GmZTL3). Of the 68 seed size (SS) and SOC CDGs, 37 were further confirmed by gene expression analysis. In addition, eight genes were found to be related to artificial selection during modern breeding. Therefore, this study provides an integrated method for efficiently identifying CDGs and valuable information for domestication and genetic research.

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