The barley pan-genome reveals the hidden legacy of mutation breeding

文献类型： 外文期刊

第一作者： Jayakodi, Murukarthick

作者： Jayakodi, Murukarthick;Padmarasu, Sudharsan;Monat, Ceecile;Himmelbach, Axel;Guo, Yu;Fiebig, Anne;Scholz, Uwe;Mascher, Martin;Stein, Nils;Haberer, Georg;Bonthala, Venkata Suresh;Gundlach, Heidrun;Lux, Thomas;Kamal, Nadia;Lang, Daniel;Mayer, Klaus F. X.;Spannagl, Manuel;Ens, Jennifer;Pozniak, Curtis J.;Zhang, Xiao-Qi;Angessa, Tefera T.;Zhou, Gaofeng;Tan, Cong;Hill, Camilla;Wang, Penghao;Li, Chengdao;Zhou, Gaofeng;Li, Chengdao;Schreiber, Miriam;Waugh, Robbie;Boston, Lori B.;Plott, Christopher;Jenkins, Jerry;Grimwood, Jane;Schmutz, Jeremy;Budak, Hikmet;Xu, Dongdong;Zhang, Jing;Wang, Chunchao;Guo, Ganggang;Zhang, Guoping;Mochida, Keiichi;Mochida, Keiichi;Mochida, Keiichi;Hirayama, Takashi;Sato, Kazuhiro;Chalmers, Kenneth J.;Langridge, Peter;Waugh, Robbie;Waugh, Robbie;Mayer, Klaus F. X.;Li, Chengdao;Mascher, Martin;Stein, Nils

作者机构：

期刊名称：NATURE （ 影响因子：49.962； 五年影响因子：54.637 ）

ISSN： 0028-0836

年卷期： 2020 年 588 卷 7837 期

页码：

收录情况： SCI

摘要： Chromosome-scale sequence assemblies of 20 diverse varieties of barley are used to construct a first-generation pan-genome, revealing previously hidden genetic variation that can be used by studies aimed at crop improvement Genetic diversity is key to crop improvement. Owing to pervasive genomic structural variation, a single reference genome assembly cannot capture the full complement of sequence diversity of a crop species (known as the 'pan-genome'(1)). Multiple high-quality sequence assemblies are an indispensable component of a pan-genome infrastructure. Barley (Hordeum vulgare L.) is an important cereal crop with a long history of cultivation that is adapted to a wide range of agro-climatic conditions(2). Here we report the construction of chromosome-scale sequence assemblies for the genotypes of 20 varieties of barley-comprising landraces, cultivars and a wild barley-that were selected as representatives of global barley diversity. We catalogued genomic presence/absence variants and explored the use of structural variants for quantitative genetic analysis through whole-genome shotgun sequencing of 300 gene bank accessions. We discovered abundant large inversion polymorphisms and analysed in detail two inversions that are frequently found in current elite barley germplasm; one is probably the product of mutation breeding and the other is tightly linked to a locus that is involved in the expansion of geographical range. This first-generation barley pan-genome makes previously hidden genetic variation accessible to genetic studies and breeding.

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