Whole-Genome Duplication Reshaped Adaptive Evolution in a Relict Plant Species, Cyclocarya Paliurus

文献类型： 外文期刊

第一作者： Qu, Yinquan

作者： Qu, Yinquan;Shang, Xulan;Yu, Yanhao;Bian, Guoliang;Liu, Li;Tian, Li;Wang, Qian;Qin, Jian;Yang, Wanxia;Sun, Caowen;Fu, Xiangxiang;Fang, Shengzuo;Qu, Yinquan;Zeng, Ziyan;Zhang, Shengcheng;Xie, Dejin;Liao, Zhenyang;Wang, Yibin;Zhang, Xingtan;Wang, Wenling;Chen, Xuequn

作者机构： Nanjing Forestry Univ, Coinnovat Ctr Sustainable Forestry Southern China, Nanjing 210037, Peoples R China;Chinese Acad Agr Sci, Guangdong Lab Lingnan Modern Agr, Genome Anal Lab, Minist Agr,Agr Genom Inst Shenzhen,Shenzhen Branch, Shenzhen 518120, Peoples R China;Fujian Agr & Forestry Univ, Key Lab Genet Breeding & Multiple Utilizat Crops, Fujian Prov Key Lab Haixia Appl Plant Syst Biol, Ctr Genom & Biotechnol,Minist Educ, Fuzhou 350002, Peoples R China

关键词： Cyclocarya paliurus; Genomics; Whole-genome duplication; Triterpenoid; Resequencing

期刊名称：GENOMICS PROTEOMICS & BIOINFORMATICS （ 2022影响因子：9.5； 五年影响因子：10.1 ）

ISSN： 1672-0229

年卷期： 2023 年 21 卷 3 期

页码：

收录情况： SCI

摘要： Cyclocarya paliurus is a relict plant species that survived the last glacial period and shows a population expansion recently. Its leaves have been traditionally used to treat obesity and diabetes with the well-known active ingredient cyclocaric acid B. Here, we presented three C. paliurus genomes from two diploids with different flower morphs and one haplotype-resolved tetraploid assembly. Comparative genomic analysis revealed two rounds of recent whole-genome duplication events and identified 691 genes with dosage effects that likely contribute to adaptive evolution through enhanced photosynthesis and increased accumulation of triterpenoids. Resequencing analysis of 45 C. paliurus individuals uncovered two bottlenecks, consistent with the known events of environmental changes, and many selectively swept genes involved in critical biological functions, including plant defense and secondary metabolite biosynthesis. We also proposed the biosynthesis pathway of cyclocaric acid B based on multi-omics data and identified key genes, in particular gibberellin-related genes, associated with the heterodichogamy in C. paliurus species. Our study sheds light on evolutionary history of C. paliurus and provides genomic resources to study the medicinal herbs.

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