Multi-omics analyses of 398 foxtail millet accessions reveal genomic regions associated with domestication, metabolite traits, and anti- inflammatory effects

文献类型： 外文期刊

第一作者： Li, Xukai

作者： Li, Xukai;Gao, Jianhua;Wang, Xingchun;Song, Jingyi;Huang, Mingquan;Wu, Hua;Guo, Kai;Hou, Siyu;Zhang, Yakun;Yang, Yulu;Tang, Jiaoyan;Han, Yuanhuai;He, Qiang;Zhang, Yanyan;Diao, Xianmin;Wang, Hailang;Chen, Peng;Persson, Staffan;Persson, Staffan;Xu, Lishuai;Zhong, Linlin;Li, Dongqin;Liu, Yongming;Wang, Xiaowen

作者机构：

关键词： foxtail millet; multi-omics; genetic association; metabolome; transcriptome; anti-inflammatory effects

期刊名称：MOLECULAR PLANT （ 影响因子：21.949； 五年影响因子：19.617 ）

ISSN： 1674-2052

年卷期： 2022 年 15 卷 8 期

页码：

收录情况： SCI

摘要： Foxtail millet (Setaria italica), which was domesticated from the wild species green foxtail (Setaria viridis), is a rich source of phytonutrients for humans. To evaluate how breeding changed the metabolome of foxtail millet grains, we generated and analyzed the datasets encompassing the genomes, transcriptomes, metabolomes, and anti-inflammatory indices from 398 foxtail millet accessions. We identified hundreds of common variants that influence numerous secondary metabolites. We observed tremendous differences in natural variations of the metabolites and their underlying genetic architectures between distinct sub-groups of foxtail millet. Furthermore, we found that the selection of the gene alleles associated with yellow grains led to altered pro-files of metabolites such as carotenoids and endogenous phytohormones. Using CRISPR-mediated genome editing we validated the function of PHYTOENE SYNTHASE 1 (PSY1) gene in affecting millet grain color and quality. Interestingly, our in vitro cell inflammation assays showed that 83 metabolites in millet grains have anti-inflammatory effects. Taken together, our multi-omics study illustrates how the breeding history of fox -tail millet has shaped its metabolite profile. The datasets we generated in this study also provide important resources for further understanding how millet grain quality is affected by different metabolites, laying the foundations for future millet genetic research and metabolome-assisted improvement.

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