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Whole-genome resequencing of the wheat A subgenome progenitor Triticum urartu provides insights into its demographic history and geographic adaptation

文献类型： 外文期刊

作者： Wang, Xin 1 ; Hu, Yafei 4 ; He, Weiming 4 ; Yu, Kang 4 ; Zhang, Chi 4 ; Li, Yiwen 1 ; Yang, Wenlong 1 ; Sun, Jiazhu 1 ; Li, Xin 1 ; Zheng, Fengya 4 ; Zhou, Shengjun 3 ; Kong, Lingrang 5 ; Ling, Hongqing 1 ; Zhao, Shancen 4 ; Liu, Dongcheng 2 ; Zhang, Aimin 1 ;

作者机构： 1.Chinese Acad Sci, State Key Lab Plant Cell & Chromosome Engn, Innovat Acad Seed Design, Inst Genet & Dev Biol,Natl Ctr Plant Gene Res, Beijing 100101, Peoples R China

2.Hebei Agr Univ, Coll Agron, State Key Lab North China Crop Improvement & Regul, Baoding 071001, Peoples R China

3.Zhejiang Acad Agr Sci, Inst Vegetables, Hangzhou 310021, Peoples R China

4.BGI Shenzhen, BGI Genom, Shenzhen 518083, Peoples R China

5.Shandong Agr Univ, Coll Agron, State Key Lab Crop Biol, Shandong Key Lab Crop Biol, Tai An 271018, Peoples R China

6.BGI Agro, BGI Inst Appl Agr, Shenzhen 518120, Peoples R China

关键词： Triticum urartu; whole-genome resequencing; demographic history; geographic adaptation; selective sweep; GWAS

期刊名称：PLANT COMMUNICATIONS （ 影响因子：8.625； 五年影响因子：8.625 ）

ISSN： 2590-3462

年卷期： 2022 年 3 卷 5 期

页码：

收录情况： SCI

摘要： Triticum urartu is the progenitor of the A subgenome in tetraploid and hexaploid wheat. Uncovering the landscape of genetic variations in T. urartu will help us understand the evolutionary and polyploid characteristics of wheat. Here, we investigated the population genomics of T. urartu by genome-wide sequencing of 59 representative accessions collected around the world. A total of 42.2 million high -quality single-nucleotide polymorphisms and 3 million insertions and deletions were obtained by map-ping reads to the reference genome. The ancient T. urartu population experienced a significant reduction in effective population size (Ne) from -3 000 000 to -140 000 and subsequently split into eastern Medi-terranean coastal and Mesopotamian-Transcaucasian populations during the Younger Dryas period. A map of allelic drift paths displayed splits and mixtures between different geographic groups, and a strong genetic drift towards hexaploid wheat was also observed, indicating that the direct donor of the A subgenome originated from northwestern Syria. Genetic changes were revealed between the eastern Mediterranean coastal and Mesopotamian-Transcaucasian populations in genes orthologous to those regulating plant development and stress responses. A genome-wide association study identified two single-nucleotide polymorphisms in the exonic regions of the SEMI-DWARF 37 ortholog that corre-sponded to the different T. urartu ecotype groups. Our study provides novel insights into the origin and genetic legacy of the A subgenome in polyploid wheat and contributes a gene repertoire for genomics-enabled improvements in wheat breeding.

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