Genotyping-by-Sequencing of Gossypium hirsutum Races and Cultivars Uncovers Novel Patterns of Genetic Relationships and Domestication Footprints

文献类型： 外文期刊

第一作者： Zhang, Shulin

作者： Zhang, Shulin;Peng, Renhai;Cai, Yaling;Guo, Jinggong;Li, Kun;Miao, Yuchen;Zhang, Xuebin;Liu, Fang;Roberts, Jeremy A.

作者机构：

关键词： Gossypium hirsutum; genotyping-by-sequencing; single nucleotide polymorphisms; DNA markers

期刊名称：EVOLUTIONARY BIOINFORMATICS （ 影响因子：1.625； 五年影响因子：2.38 ）

ISSN： 1176-9343

年卷期： 2019 年 15 卷

页码：

收录情况： SCI

摘要： Determining the genetic rearrangement and domestication footprints in Gossypium hirsutum cultivars and primitive race genotypes are essential for effective gene conservation efforts and the development of advanced breeding molecular markers for marker-assisted breeding. In this study, 94 accessions representing the 7 primitive races of G hirsutum, along with 9 G hirsutum and 12 Gossypium barbadense cultivated accessions were evaluated. The genotyping-by-sequencing (GBS) approach was employed and 146 558 single nucleotide polymorphisms (SNP) were generated. Distinct SNP signatures were identified through the combination of selection scans and association analyses. Phylogenetic analyses were also conducted, and we concluded that the Latifolium, Richmondi, and Marie-Galante race accessions were more genetically related to the G hirsutum cultivars and tend to cluster together. Fifty-four outlier SNP loci were identified by selection-scan analysis, and 3 SNPs were located in genes related to the processes of plant responding to stress conditions and confirmed through further genome-wide signals of marker-phenotype association analysis, which indicate a clear selection signature for such trait. These results identified useful candidate gene locus for cotton breeding programs.

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