Large-scale gene expression alterations introduced by structural variation drive morphotype diversification in Brassica oleracea

文献类型： 外文期刊

第一作者： Li, Xing

作者： Li, Xing;Wang, Yong;Cai, Chengcheng;Ji, Jialei;Han, Fengqing;Zhang, Lei;Chen, Shumin;Zhang, Lingkui;Yang, Yinqing;Tang, Qi;Wang, Xuelin;Yang, Limei;Zhuang, Mu;Zhang, Kang;Lv, Honghao;Zhang, Yangyong;Cheng, Feng;Cai, Chengcheng;Bucher, Johan;Bonnema, Guusje

作者机构：

期刊名称：NATURE GENETICS （ 影响因子：30.8； 五年影响因子：37.4 ）

ISSN： 1061-4036

年卷期： 2024 年 56 卷 3 期

页码：

收录情况： SCI

摘要： Brassica oleracea, globally cultivated for its vegetable crops, consists of very diverse morphotypes, characterized by specialized enlarged organs as harvested products. This makes B. oleracea an ideal model for studying rapid evolution and domestication. We constructed a B. oleracea pan-genome from 27 high-quality genomes representing all morphotypes and their wild relatives. We identified structural variations (SVs) among these genomes and characterized these in 704 B. oleracea accessions using graph-based genome tools. We show that SVs exert bidirectional effects on the expression of numerous genes, either suppressing through DNA methylation or promoting probably by harboring transcription factor-binding elements. The following examples illustrate the role of SVs modulating gene expression: SVs promoting BoPNY and suppressing BoCKX3 in cauliflower/broccoli, suppressing BoKAN1 and BoACS4 in cabbage and promoting BoMYBtf in ornamental kale. These results provide solid evidence for the role of SVs as dosage regulators of gene expression, driving B. oleracea domestication and diversification.

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