Genomic innovation and regulatory rewiring during evolution of the cotton genus Gossypium

文献类型： 外文期刊

第一作者： Wang, Maojun

作者： Wang, Maojun;Li, Jianying;Qi, Zhengyang;Long, Yuexuan;Pei, Liuling;Huang, Xianhui;Wang, Pengcheng;Liu, Zhenping;You, Jiaqi;Tian, Xuehan;Ma, Yizan;Wang, Ruipeng;Chen, Xinyuan;He, Xin;Tu, Lili;Jin, Shuangxia;Zhu, Longfu;Zhang, Xianlong;Grover, Corrinne E.;Wendel, Jonathan F.;Du, Xiongming;Xia, Chunjiao;Fang, David D.;Sun, Yuqiang

作者机构： Huazhong Agr Univ, Natl Key Lab Crop Genet Improvement, Hubei Hongshan Lab, Wuhan, Peoples R China;Iowa State Univ, Dept Ecol Evolut & Organismal Biol, Ames, IA USA;Chinese Acad Agr Sci, Inst Cotton Res, State Key Lab Cotton Biol, Anyang, Peoples R China;Huazhong Agr Univ, Coll Life Sci & Technol, Wuhan, Peoples R China;USDA ARS, Cotton Fiber Biosci Res Unit, Southern Reg Res Ctr, New Orleans, LA USA;Zhejiang Sci Tech Univ, Coll Life Sci, Hangzhou, Zhejiang, Peoples R China

期刊名称：NATURE GENETICS （ 2022影响因子：30.8； 五年影响因子：37.4 ）

ISSN： 1061-4036

年卷期： 2022 年 54 卷 12 期

页码：

收录情况： SCI

摘要： Phenotypic diversity and evolutionary innovation ultimately trace to variation in genomic sequence and rewiring of regulatory networks. Here, we constructed a pan-genome of the Gossypium genus using ten representative diploid genomes. We document the genomic evolutionary history and the impact of lineage-specific transposon amplification on differential genome composition. The pan-3D genome reveals evolutionary connections between transposon-driven genome size variation and both higher-order chromatin structure reorganization and the rewiring of chromatin interactome. We linked changes in chromatin structures to phenotypic differences in cotton fiber and identified regulatory variations that decode the genetic basis of fiber length, the latter enabled by sequencing 1,005 transcriptomes during fiber development. We showcase how pan-genomic, pan-3D genomic and genetic regulatory data serve as a resource for delineating the evolutionary basis of spinnable cotton fiber. Our work provides insights into the evolution of genome organization and regulation and will inform cotton improvement by enabling regulome-based approaches.

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