A wild melon reference genome provides novel insights into the domestication of a key gene responsible for melon fruit acidity

文献类型： 外文期刊

第一作者： Chen, Xinxiu

作者： Chen, Xinxiu;Xu, Kuipeng;Yao, Zhiwang;Yu, Qing;Zhang, Huimin;Zhang, Zhonghua;Li, Hongbo;Xu, Yuanchao;Li, Hongbo;Dong, Yuanhua;Zhang, Qiqi

作者机构：

期刊名称：THEORETICAL AND APPLIED GENETICS （ 影响因子：5.4； 五年影响因子：5.7 ）

ISSN： 0040-5752

年卷期： 2024 年 137 卷 6 期

页码：

收录情况： SCI

摘要： Key messageA wild melon reference genome elucidates the genomic basis of fruit acidity domestication.AbstractStructural variants (SVs) have been reported to impose major effects on agronomic traits, representing a significant contributor to crop domestication. However, the landscape of SVs between wild and cultivated melons is elusive and how SVs have contributed to melon domestication remains largely unexplored. Here, we report a 379-Mb chromosome-scale genome of a wild progenitor melon accession "P84", with a contig N50 of 14.9 Mb. Genome comparison identifies 10,589 SVs between P84 and four cultivated melons with 6937 not characterized in previously analysis of 25 melon genome sequences. Furthermore, the population-scale genotyping of these SVs was determined in 1175 accessions, and 18 GWAS signals including fruit acidity, fruit length, fruit weight, fruit color and sex determination were detected. Based on these genotyped SVs, we identified 3317 highly diverged SVs between wild and cultivated melons, which could be the potential SVs associated with domestication-related traits. Furthermore, we identify novel SVs affecting fruit acidity and proposed the diverged evolutionary trajectories of CmPH, a key regulator of melon fruit acidity, during domestication and selection of different populations. These results will offer valuable resources for genomic studies and genetic improvement in melon.

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