Phylogenomic discovery of deleterious mutations facilitates hybrid potato

文献类型： 外文期刊

第一作者： Wu, Yaoyao

作者： Wu, Yaoyao;Li, Dawei;Hu, Yong;Li, Hongbo;Zhou, Shaoqun;Zhang, Xinyan;Bao, Zhigui;Zhang, Yu;Zhou, Yao;Zhou, Yongfeng;Zhang, Chunzhi;Huang, Sanwen;Li, Dawei;Buckler, Edward S.;Li, Dawei;Huang, Sanwen;Hu, Yong;Ramstein, Guillaume P.;Bao, Zhigui;Zhang, Yu;Song, Baoxing;Zhou, Yao;Zhou, Yao;Gagnon, Edeline;Sarkinen, Tiina;Knapp, Sandra;Stadler, Thomas;Stadler, Thomas;Buckler, Edward S.

作者机构：

期刊名称：CELL （ 影响因子：64.5； 五年影响因子：57.5 ）

ISSN： 0092-8674

年卷期： 2023 年 186 卷 11 期

页码：

收录情况： SCI

摘要： Hybrid potato breeding will transform the crop from a clonally propagated tetraploid to a seed-reproducing diploid. Historical accumulation of deleterious mutations in potato genomes has hindered the development of elite inbred lines and hybrids. Utilizing a whole-genome phylogeny of 92 Solanaceae and its sister clade species, we employ an evolutionary strategy to identify deleterious mutations. The deep phylogeny reveals the genome-wide landscape of highly constrained sites, comprising-2.4% of the genome. Based on a diploid potato diversity panel, we infer 367,499 deleterious variants, of which 50% occur at non-coding and 15% at synonymous sites. Counterintuitively, diploid lines with relatively high homozygous deleterious burden can be better starting material for inbred-line development, despite showing less vigorous growth. Inclusion of inferred deleterious mutations increases genomic-prediction accuracy for yield by 24.7%. Our study generates insights into the genome-wide incidence and properties of deleterious mutations and their far-reaching consequences for breeding.

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