Genomic Insight into Differentiation and Selection Sweeps in the Improvement of Upland Cotton
Genomic Insight into Differentiation and Selection Sweeps in the Improvement of Upland Cotton
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DOI：
10.3390/plants9060711
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发表时间：
2020-06-01
期刊：
影响因子：
4.5
通讯作者：
Du, Xiongming
中科院分区：
文献类型：
--
作者：
Nazir, Mian Faisal;Jia, Yinhua;Du, Xiongming
高地棉是经济上最重要的纤维作物。人工选择已培育出产量更高、纤维品质更好的现代高地品种。然而，人类介导的选择导致的基因组结构的变化知之甚少。比较群体基因组学为我们提供了剖析驯化遗传历史的工具，并有助于理解人类介导的选择的全基因组效应。因此，我们报告了一个全面的评估陆地棉地方品种，过时的品种和现代品种的基础上高通量全基因组测序的核心基因型集。作为全基因组扫描的结果，我们确定了93个差异区域和311个与驯化和改良相关的选择扫描。此外，我们进行了全基因组关联研究，以确定与差异区域和选择扫描相关的性状。本研究为深入了解中国棉花品种的驯化过程提供了遗传基础。它还提供了一个全面的洞察基因组结构的变化，由于选择和改进，在过去的世纪。我们还确定了多个全基因组关联（GWAS协会）的纤维产量，品质和其他形态特征。
Upland cotton is the most economically important fibre crop. The human-mediated selection has resulted in modern upland cultivars with higher yield and better fibre quality. However, changes in genome structure resulted from human-mediated selection are poorly understood. Comparative population genomics offers us tools to dissect the genetic history of domestication and helps to understand the genome-wide effects of human-mediated selection. Hereby, we report a comprehensive assessment ofGossypium hirsutumlandraces, obsolete cultivars and modern cultivars based on high throughput genome-wide sequencing of the core set of genotypes. As a result of the genome-wide scan, we identified 93 differential regions and 311 selection sweeps associated with domestication and improvement. Furthermore, we performed genome-wide association studies to identify traits associated with the differential regions and selection sweeps. Our study provides a genetic basis to understand the domestication process in Chinese cotton cultivars. It also provides a comprehensive insight into changes in genome structure due to selection and improvement during the last century. We also identified multiple genome-wide associations (GWAS associations) for fibre yield, quality and other morphological characteristics.