He Shoupu, Wang Pengpeng, Zhang Yuan-Ming, Dai Panhong, Nazir Mian Faisal, Jia Yinhua, Peng Zhen, Pan Zhaoe, Sun Junling, Wang Liru, Sun Gaofei, Du Xiongming
State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, China.
College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China.
Front Plant Sci. 2020 Jul 6;11:929. doi: 10.3389/fpls.2020.00929. eCollection 2020.
Understanding the genetic diversity and population structure of germplasms is essential when selecting parents for crop breeding. The genomic changes that occurred during the domestication and improvement of Upland cotton () remains poorly understood. Besides, the available genetic resources from cotton cultivars are limited. By applying restriction site-associated DNA marker sequencing (RAD-seq) technology to 582 tetraploid cotton accessions, we confirmed distinct genomic regions on chromosomes A06 and A08 in Upland cotton cultivar subgroups. Based on the pedigree, reported QTLs, introgression analyses, and genome-wide association study (GWAS), we suggest that these divergent regions might have resulted from the introgression of exotic lineages of landraces and their wild relatives. These regions were the typical genomic signatures that might be responsible for maturity and fiber quality on chromosome A06 and chromosome A08, respectively. Moreover, these genomic regions are located in the putative pericentromeric regions, implying that their application will be challenging. In the study, based on high-density SNP markers, we reported two genomic signatures on chromosomes A06 and A08, which might originate from the introgression events in the Upland cotton population. Our study provides new insights for understanding the impact of historic introgressions on population divergence and important agronomic traits of modern Upland cotton cultivars.
在为作物育种选择亲本时，了解种质的遗传多样性和群体结构至关重要。陆地棉（）在驯化和改良过程中发生的基因组变化仍知之甚少。此外，棉花品种现有的遗传资源有限。通过对582份四倍体棉花种质应用限制性位点相关DNA标记测序（RAD-seq）技术，我们在陆地棉品种亚组的A06和A08染色体上确认了不同的基因组区域。基于系谱、已报道的QTL、渗入分析和全基因组关联研究（GWAS），我们认为这些不同区域可能是由于陆地棉地方品种及其野生近缘种的外来谱系渗入所致。这些区域是典型的基因组特征，可能分别与A06染色体上的成熟度和A08染色体上的纤维品质有关。此外，这些基因组区域位于假定的着丝粒周围区域，这意味着它们的应用将具有挑战性。在本研究中，基于高密度SNP标记，我们报道了A06和A08染色体上的两个基因组特征，它们可能起源于陆地棉群体中的渗入事件。我们的研究为理解历史渗入对群体分化和现代陆地棉品种重要农艺性状的影响提供了新的见解。
