Population genomic analysis reveals domestication of cultivated rye from weedy rye  

作　　者：Yanqing Sun Enhui Shen Yiyu Hu Dongya Wu Yu Feng Sangting Lao Chenfeng Dong Tianyu Du Wei Hua Chu-Yu Ye Jinhuan Zhu Qian-Hao Zhu Daguang Cai Lidia Skuza Jie Qiu Longjiang Fan 

机构地区：[1]Institute of Crop Science&Institute of Bioinformatics,Zhejiang University,Hangzhou 310058,China [2]Zhejiang University Zhongyuan Institute,Zhengzhou 450000,China [3]Shandong(Linyi)Institute of Modern Agriculture of Zhejiang University,Linyi 310014,China [4]Institute of Ecology,Zhejiang University,Hangzhou 310058,China [5]Institute of Crops,Zhejiang Academy of Agricultural Sciences,Hangzhou 322105,China [6]CSIRO Agriculture and Food,GPO Box 1700,Canberra,ACT 2601,Australia [7]Department of Molecular Phytopathology and Biotechnology,Christian-Albrechts-University of Kiel,24118 Kiel,Germany [8]Institute of Biology,University of Szczecin,71-415 Szczecin,Poland [9]Shanghai Key Laboratory of Plant Molecular Sciences,College of Life Sciences,Shanghai Normal University,Shanghai 200235,China

出　　处：《Molecular Plant》2022年第3期552-561,共10页分子植物（英文版）

基　　金：This work was supported by the National Natural Science Foundation(grant 9143511);Department of Science and Technology of Zhejiang Province(grant 2020C02002);the Zhejiang Natural Science Foundation(grant LZ17C130001);the Jiangsu Collaborative Innovation Center for Modern Crop Production,and the 111 Project(grant B17039)to L.F.

摘　　要：Rye(Secale cereale)is an important crop with multiple uses and a valuable genetic resource for wheat breeding.However,due to its complex genome and outcrossing nature,the origin of cultivated rye remains elusive.The geneticist N.I.Vavilov proposed that cultivated rye had been domesticated from weedy rye,rather than directly from wild species like other crops.Unraveling the domestication history of rye will extend our understanding of crop evolution and upend our inherent understanding of agricultural weeds.To this end,in this study we generated the 8.5 Tb of whole-genome resequencing data from 116 worldwide accessions of wild,weedy,and cultivated rye,and demonstrated that cultivated rye was domesticated directly from weedy relatives with a similar but enhanced genomic selection by humans.We found that a repertoire of genes that experienced artificial selection is associated with important agronomic traits,including shattering,grain yield,and disease resistance.Furthermore,we identified a composite introgression in cultivated rye from the wild perennial Secale strictum and detected a 2-Mb introgressed fragment containing a candidate ammonium transporter gene with potential effect on the grain yield and plant growth of rye.Taken together,our findings unravel the domestication history of cultivated rye,suggest that interspecific introgression serves as one of the likely causes of obscure species taxonomy of the genus Secale,and provide an important resource for future rye and wheat breeding.

关 键 词：Secale cereale DOMESTICATION weedy rye INTROGRESSION Vavilovian hypothesis 

分 类 号：S512.1[农业科学—作物学]