Whole-Genome Resequencing of a Worldwide Collection of Rapeseed Accessions Reveals the Genetic Basis of Ecotype Divergence
文献类型： 外文期刊
作者： Wu, Dezhi 1 ; Liang, Zhe 2 ; Yan, Tao 1 ; Xu, Ying 1 ; Xuan, Lijie 1 ; Tang, Juan 4 ; Zhou, Gang 4 ; Lohwasser, Ulrike 5 ; H 1 ;
作者机构： 1.Zhejiang Univ, Inst Crop Sci, Hangzhou 310058, Zhejiang, Peoples R China
2.Natl Univ Singapore, Temasek Life Sci Lab, Singapore 117543, Singapore
3.Natl Univ Singapore, Dept Biol Sci, Singapore 117543, Singapore
4.Biomarker Technol Corp, Beijing 101300, Peoples R China
5.Leibniz Inst Plant Genet & Crop Plant Res, Dept Genebank, D-06466 Stadt Seeland, Germany
6.Zhejiang Acad Agr Sci, Inst Crop & Nucl Agr Sci, Hangzhou 310021, Zhejiang, Peoples R China
7.PMAS Arid Agr Univ Rawalpindi, Off Res Innovat & Commercializat, Rawalpindi 46300, Pakistan
8.Jinhua Acad Agr Sci, Inst Crop Sci, Jinhua 321017, Peoples R China
关键词： Brassica napus; genome resequencing; selective sweep; ecotype divergence; GWAS; flowering-time trait
期刊名称：MOLECULAR PLANT （ 影响因子：13.164； 五年影响因子：16.357 ）
ISSN： 1674-2052
年卷期： 2019 年 12 卷 1 期
页码：
收录情况： SCI
摘要： Rapeseed (Brassica napus), an important oilseed crop, has adapted to diverse climate zones and latitudes by forming three main ecotype groups, namely winter, semi-winter, and spring types. However, genetic variations underlying the divergence of these ecotypes are largely unknown. Here, we report the global pattern of genetic polymorphisms in rapeseed determined by resequencing a worldwide collection of 991 germplasm accessions. A total of 5.56 and 5.53 million single-nucleotide polymorphisms (SNPs) as well as 1.86 and 1.92 million InDels were identified by mapping reads to the reference genomes of "Darmor-bzh'' and "Tapidor,'' respectively. We generated a map of allelic drift paths that shows splits and mixtures of the main populations, and revealed an asymmetric evolution of the two subgenomes of B. napus by calculating the genetic diversity and linkage disequilibrium parameters. Selective-sweep analysis revealed genetic changes in genes orthologous to those regulating various aspects of plant development and response to stresses. A genome-wide association study identified SNPs in the promoter regions of FLOWERING LOCUS T and FLOWERING LOCUS C orthologs that corresponded to the different rapeseed ecotype groups. Our study provides important insights into the genomic footprints of rapeseed evolution and flowering-time divergence among three ecotype groups, and will facilitate screening of molecular markers for accelerating rapeseed breeding.
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