An atlas of DNA methylomes in porcine adipose and muscle tissues

Mingzhou Li, Honglong Wu, Zonggang Luo, Yudong Xia, Jiuqiang Guan, Tao Wang, Yiren Gu, Lei Chen, Kai Zhang, Jideng Ma, Yingkai Liu, Zhijun Zhong, Jing Nie, Shuling Zhou, Zhiping Mu, Xiaoyan Wang, Jingjing Qu, Long Jing, Huiyu Wang, Shujia Huang, Na Yi, Zhe Wang, Dongxing Xi, Juan Wang, Guangliang Yin, Li Wang, Ning Li, Zhi Jiang, Qiulei Lang, Huasheng Xiao, Anan Jiang, Li Zhu, Yanzhi Jiang, Guoqing Tang, Miaomiao Mai, Surong Shuai, Ning Li, Kui Li, Jinyong Wang, Xiuqing Zhang, Yingrui Li, Haosi Chen, Xiaolian Gao, Graham S. Plastow, Stephen Beck, Huanming Yang, Jian Wang, Jun Wang, Xuewei Li () and Ruiqiang Li ()
Additional contact information
Mingzhou Li: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Honglong Wu: BGI-Shenzhen
Zonggang Luo: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Yudong Xia: BGI-Shenzhen
Jiuqiang Guan: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Tao Wang: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Yiren Gu: Sichuan Animal Science Academy
Lei Chen: Chongqing Academy of Animal Science
Kai Zhang: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Jideng Ma: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Yingkai Liu: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Zhijun Zhong: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Jing Nie: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Shuling Zhou: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Zhiping Mu: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Xiaoyan Wang: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Jingjing Qu: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Long Jing: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Huiyu Wang: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Shujia Huang: BGI-Shenzhen
Na Yi: BGI-Shenzhen
Zhe Wang: BGI-Shenzhen
Dongxing Xi: BGI-Shenzhen
Juan Wang: BGI-Shenzhen
Guangliang Yin: BGI-Shenzhen
Li Wang: BGI-Shenzhen
Ning Li: BGI-Shenzhen
Zhi Jiang: BGI-Shenzhen
Qiulei Lang: LC-Bio
Huasheng Xiao: National Engineering Center for Biochip at Shanghai
Anan Jiang: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Li Zhu: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Yanzhi Jiang: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Guoqing Tang: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Miaomiao Mai: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Surong Shuai: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Ning Li: State Key Laboratory for Agrobiotechnology, China Agricultural University
Kui Li: Institute of Animal Science, Chinese Academy of Agricultural Sciences
Jinyong Wang: Chongqing Academy of Animal Science
Xiuqing Zhang: BGI-Shenzhen
Yingrui Li: BGI-Shenzhen
Haosi Chen: University of Houston
Xiaolian Gao: University of Houston
Graham S. Plastow: Food and Nutritional Science, University of Alberta
Stephen Beck: Medical Genomics, UCL Cancer Institute, University College London
Huanming Yang: BGI-Shenzhen
Jian Wang: BGI-Shenzhen
Jun Wang: BGI-Shenzhen
Xuewei Li: Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University
Ruiqiang Li: BGI-Shenzhen

Nature Communications, 2012, vol. 3, issue 1, 1-11

Abstract: Abstract It is evident that epigenetic factors, especially DNA methylation, have essential roles in obesity development. Here, using pig as a model, we investigate the systematic association between DNA methylation and obesity. We sample eight variant adipose and two distinct skeletal muscle tissues from three pig breeds living within comparable environments but displaying distinct fat level. We generate 1,381 Gb of sequence data from 180 methylated DNA immunoprecipitation libraries, and provide a genome-wide DNA methylation map as well as a gene expression map for adipose and muscle studies. The analysis shows global similarity and difference among breeds, sexes and anatomic locations, and identifies the differentially methylated regions. The differentially methylated regions in promoters are highly associated with obesity development via expression repression of both known obesity-related genes and novel genes. This comprehensive map provides a solid basis for exploring epigenetic mechanisms of adipose deposition and muscle growth.

Date: 2012
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DOI: 10.1038/ncomms1854

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