Resequencing of cv CRI-12 family reveals haplotype block inheritance and recombination of agronomically important genes in artificial selection

文献类型： 外文期刊

第一作者： Xuke Lu;;Xiaoqiong Fu;;Delong Wang;;Junyi Wang;;Xiugui Chen;;Meirong Hao

作者： Xuke Lu;Xiaoqiong Fu;Delong Wang;Junyi Wang;Xiugui Chen;Meirong Hao;Junjuan Wang;Kyle A. Gervers;Lixue Guo;Shuai Wang;Zujun Yin;Weili Fan;Chunwei Shi;Xiaoge Wang;Jun Peng;Chao Chen;Ruifeng Cui;Na Shu;Binglei Zhang;Mingge Han;Xiaojie Zhao;Min Mu;John Z. Yu;Wuwei Ye

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关键词： CRI-12 family; SNPs; haplotype block; inheritance and recombination; artificial selection

期刊名称：PLANT BIOTECHNOLOGY JOURNAL （ 影响因子：9.803； 五年影响因子：9.555 ）

ISSN： 1467-7644

年卷期： 2019 年 17 卷 5 期

页码：

收录情况： SCI

摘要： Although efforts have been taken to exploit diversity for yield and quality improvements, limited progress on using beneficial alleles in domesticated and undomesticated cotton varieties is limited. Given the complexity and limited amount of genomic information since the completion of four cotton genomes, characterizing significant variations and haplotype block inheritance under artificial selection has been challenging. Here we sequenced Gossypium hirsutum L. cv CRI-12 (the cotton variety with the largest acreage in China), its parental cultivars, and progeny cultivars, which were bred by the different institutes in China. In total, 3.3 million SNPs were identified and 118, 126 and 176 genes were remarkably correlated with Verticillium wilt, salinity and drought tolerance in CRI-12, respectively. Transcriptome-wide analyses of gene expression, and functional annotations, have provided support for the identification of genes tied to these tolerances. We totally discovered 58 116 haplotype blocks, among which 23 752 may be inherited and 1029 may be recombined under artificial selection. This survey of genetic diversity identified loci that may have been subject to artificial selection and documented the haplotype block inheritance and recombination, shedding light on the genetic mechanism of artificial selection and guiding breeding efforts for the genetic improvement of cotton.

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