An integrated peach genome structural variation map uncovers genes associated with fruit traits

文献类型： 外文期刊

第一作者： Guo, Jian

作者： Guo, Jian;Cao, Ke;Li, Yong;Zhu, Gengrui;Fang, Weichao;Chen, Changwen;Wang, Xinwei;Wu, Jinlong;Guan, Liping;Wang, Lirong;Guo, Jian;Guo, Wenwu;Deng, Cecilia;Yao, Jia-Long;Wu, Shan;Fei, Zhangjun;Fei, Zhangjun

作者机构：

关键词： SVs; GWAS; Peach; Fruit; Fruit shape

期刊名称：GENOME BIOLOGY （ 影响因子：13.583； 五年影响因子：17.433 ）

ISSN： 1474-760X

年卷期： 2020 年 21 卷 1 期

页码：

收录情况： SCI

摘要： BackgroundGenome structural variations (SVs) have been associated with key traits in a wide range of agronomically important species; however, SV profiles of peach and their functional impacts remain largely unexplored.ResultsHere, we present an integrated map of 202,273 SVs from 336 peach genomes. A substantial number of SVs have been selected during peach domestication and improvement, which together affect 2268 genes. Genome-wide association studies of 26 agronomic traits using these SVs identify a number of candidate causal variants. A 9-bp insertion in Prupe.4G186800, which encodes a NAC transcription factor, is shown to be associated with early fruit maturity, and a 487-bp deletion in the promoter of PpMYB10.1 is associated with flesh color around the stone. In addition, a 1.67Mb inversion is highly associated with fruit shape, and a gene adjacent to the inversion breakpoint, PpOFP1, regulates flat shape formation.ConclusionsThe integrated peach SV map and the identified candidate genes and variants represent valuable resources for future genomic research and breeding in peach.

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