Dynamic chromatin architecture of the porcine adipose tissues with weight gain and loss

Long Jin, Danyang Wang, Jiaman Zhang, Pengliang Liu, Yujie Wang, Yu Lin, Can Liu, Ziyin Han, Keren Long, Diyan Li, Yu Jiang, Guisen Li, Yu Zhang, Jingyi Bai, Xiaokai Li, Jing Li, Lu Lu, Fanli Kong, Xun Wang, Hua Li, Zhiqing Huang, Jideng Ma, Xiaolan Fan, Linyuan Shen, Li Zhu, Yanzhi Jiang, Guoqing Tang, Bin Feng, Bo Zeng, Liangpeng Ge, Xuewei Li, Qianzi Tang, Zhihua Zhang () and Mingzhou Li ()
Additional contact information
Long Jin: Sichuan Agricultural University
Danyang Wang: Beijing Institute of Genomics, Chinese Academy of Sciences and China National Center for Bioinformation
Jiaman Zhang: Sichuan Agricultural University
Pengliang Liu: Sichuan Agricultural University
Yujie Wang: Sichuan Agricultural University
Yu Lin: Sichuan Agricultural University
Can Liu: Sichuan Agricultural University
Ziyin Han: Sichuan Agricultural University
Keren Long: Sichuan Agricultural University
Diyan Li: Chengdu University
Yu Jiang: Northwest A&F University
Guisen Li: University of Electronic Science and Technology of China
Yu Zhang: Sichuan Agricultural University
Jingyi Bai: Sichuan Agricultural University
Xiaokai Li: Sichuan Agricultural University
Jing Li: Sichuan Agricultural University
Lu Lu: Sichuan Agricultural University
Fanli Kong: Sichuan Agricultural University
Xun Wang: Sichuan Agricultural University
Hua Li: Foshan University
Zhiqing Huang: Sichuan Agricultural University
Jideng Ma: Sichuan Agricultural University
Xiaolan Fan: Sichuan Agricultural University
Linyuan Shen: Sichuan Agricultural University
Li Zhu: Sichuan Agricultural University
Yanzhi Jiang: Sichuan Agricultural University
Guoqing Tang: Sichuan Agricultural University
Bin Feng: Sichuan Agricultural University
Bo Zeng: Sichuan Agricultural University
Liangpeng Ge: Pig Industry Sciences Key Laboratory of Ministry of Agriculture and Rural Affairs, Chongqing Academy of Animal Sciences
Xuewei Li: Sichuan Agricultural University
Qianzi Tang: Sichuan Agricultural University
Zhihua Zhang: Beijing Institute of Genomics, Chinese Academy of Sciences and China National Center for Bioinformation
Mingzhou Li: Sichuan Agricultural University

Nature Communications, 2023, vol. 14, issue 1, 1-19

Abstract: Abstract Using an adult female miniature pig model with diet-induced weight gain/weight loss, we investigated the regulatory mechanisms of three-dimensional (3D) genome architecture in adipose tissues (ATs) associated with obesity. We generated 249 high-resolution in situ Hi-C chromatin contact maps of subcutaneous AT and three visceral ATs, analyzing transcriptomic and chromatin architectural changes under different nutritional treatments. We find that chromatin architecture remodeling underpins transcriptomic divergence in ATs, potentially linked to metabolic risks in obesity development. Analysis of chromatin architecture among subcutaneous ATs of different mammals suggests the presence of transcriptional regulatory divergence that could explain phenotypic, physiological, and functional differences in ATs. Regulatory element conservation analysis in pigs and humans reveals similarities in the regulatory circuitry of genes responsible for the obesity phenotype and identified non-conserved elements in species-specific gene sets that underpin AT specialization. This work provides a data-rich tool for discovering obesity-related regulatory elements in humans and pigs.

Date: 2023
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DOI: 10.1038/s41467-023-39191-0

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