A compendium and comparative epigenomics analysis of cis-regulatory elements in the pig genome

文献类型： 外文期刊

第一作者： Zhao, Yunxia

作者： Zhao, Yunxia;Hou, Ye;Xu, Yueyuan;Luan, Yu;Zhou, Huanhuan;Qi, Xiaolong;Hu, Mingyang;Wang, Daoyuan;Wang, Zhangxu;Fu, Yuhua;Li, Jingjin;Zhang, Saixian;Chen, Jianhai;Li, Xinyun;Zhao, Shuhong;Zhao, Yunxia;Hou, Ye;Xu, Yueyuan;Luan, Yu;Zhou, Huanhuan;Qi, Xiaolong;Hu, Mingyang;Wang, Daoyuan;Wang, Zhangxu;Fu, Yuhua;Li, Jingjin;Zhang, Saixian;Chen, Jianhai;Li, Xinyun;Zhao, Shuhong;Han, Jianlin;Han, Jianlin;Li, Xinyun;Zhao, Shuhong

作者机构：

期刊名称：NATURE COMMUNICATIONS （ 影响因子：12.121； 五年影响因子：13.61 ）

ISSN： 2041-1723

年卷期： 2021 年 12 卷 1 期

页码：

收录情况： SCI

摘要： Although major advances in genomics have initiated an exciting new era of research, a lack of information regarding cis-regulatory elements has limited the genetic improvement or manipulation of pigs as a meat source and biomedical model. Here, we systematically characterize cis-regulatory elements and their functions in 12 diverse tissues from four pig breeds by adopting similar strategies as the ENCODE and Roadmap Epigenomics projects, which include RNA-seq, ATAC-seq, and ChIP-seq. In total, we generate 199 datasets and identify more than 220,000 cis-regulatory elements in the pig genome. Surprisingly, we find higher conservation of cis-regulatory elements between human and pig genomes than those between human and mouse genomes. Furthermore, the differences of topologically associating domains between the pig and human genomes are associated with morphological evolution of the head and face. Beyond generating a major new benchmark resource for pig epigenetics, our study provides basic comparative epigenetic data relevant to using pigs as models in human biomedical research. To date, little is known about the regulatory landscape of the pig genome. Here, the authors characterize cis-regulatory elements in the pig genome using RNA-seq, ChIP-Seq and ATAC-seq, finding a higher degree of usage conservation between pig and human than mouse and human.

分类号：

  • 相关文献
作者其他论文 更多>>

微信小程序