High fat diet and exercise lead to a disrupted and pathogenic DNA methylome in mouse liver

Dan Zhou, Ryan A. Hlady, Marissa J. Schafer, Thomas A. White, Chen Liu, Jeong-Hyeon Choi, Jordan D. Miller, Lewis R. Roberts, Nathan K. LeBrasseur, Keith D. Robertson

Research output: Contribution to journalArticle

10 Citations (Scopus)

Abstract

High-fat diet consumption and sedentary lifestyle elevates risk for obesity, non-alcoholic fatty liver disease, and cancer. Exercise training conveys health benefits in populations with or without these chronic conditions. Diet and exercise regulate gene expression by mediating epigenetic mechanisms in many tissues; however, such effects are poorly documented in the liver, a central metabolic organ. To dissect the consequences of diet and exercise on the liver epigenome, we measured DNA methylation, using reduced representation bisulfite sequencing, and transcription, using RNA-seq, in mice maintained on a fast food diet with sedentary lifestyle or exercise, compared with control diet with and without exercise. Our analyses reveal that genome-wide differential DNA methylation and expression of gene clusters are induced by diet and/or exercise. A combination of fast food and exercise triggers extensive gene alterations, with enrichment of carbohydrate/lipid metabolic pathways and muscle developmental processes. Through evaluation of putative protective effects of exercise on diet-induced DNA methylation, we show that hypermethylation is effectively prevented, especially at promoters and enhancers, whereas hypomethylation is only partially attenuated. We assessed diet-induced DNA methylation changes associated with liver cancer-related epigenetic modifications and identified significant increases at liver-specific enhancers in fast food groups, suggesting partial loss of liver cell identity. Hypermethylation at a subset of gene promoters was associated with inhibition of tissue development and promotion of carcinogenic processes. Our study demonstrates extensive reprogramming of the epigenome by diet and exercise, emphasizing the functional relevance of epigenetic mechanisms as an interface between lifestyle modifications and phenotypic alterations.

Original languageEnglish (US)
Pages (from-to)55-69
Number of pages15
JournalEpigenetics
Volume12
Issue number1
DOIs
StatePublished - Jan 2 2017

Fingerprint

High Fat Diet
Diet
Liver
DNA
DNA Methylation
Fast Foods
Epigenomics
Sedentary Lifestyle
Liver Neoplasms
Insurance Benefits
Multigene Family
Metabolic Networks and Pathways
Genes
Life Style
Obesity
Carbohydrates
Genome
RNA
Exercise
Lipids

Keywords

  • Aging
  • DNA methylation
  • NAFLD
  • cancer
  • exercise
  • high fat

ASJC Scopus subject areas

  • Molecular Biology
  • Cancer Research

Cite this

Zhou, D., Hlady, R. A., Schafer, M. J., White, T. A., Liu, C., Choi, J-H., ... Robertson, K. D. (2017). High fat diet and exercise lead to a disrupted and pathogenic DNA methylome in mouse liver. Epigenetics, 12(1), 55-69. https://doi.org/10.1080/15592294.2016.1261239

High fat diet and exercise lead to a disrupted and pathogenic DNA methylome in mouse liver. / Zhou, Dan; Hlady, Ryan A.; Schafer, Marissa J.; White, Thomas A.; Liu, Chen; Choi, Jeong-Hyeon; Miller, Jordan D.; Roberts, Lewis R.; LeBrasseur, Nathan K.; Robertson, Keith D.

In: Epigenetics, Vol. 12, No. 1, 02.01.2017, p. 55-69.

Research output: Contribution to journalArticle

Zhou, D, Hlady, RA, Schafer, MJ, White, TA, Liu, C, Choi, J-H, Miller, JD, Roberts, LR, LeBrasseur, NK & Robertson, KD 2017, 'High fat diet and exercise lead to a disrupted and pathogenic DNA methylome in mouse liver', Epigenetics, vol. 12, no. 1, pp. 55-69. https://doi.org/10.1080/15592294.2016.1261239
Zhou, Dan ; Hlady, Ryan A. ; Schafer, Marissa J. ; White, Thomas A. ; Liu, Chen ; Choi, Jeong-Hyeon ; Miller, Jordan D. ; Roberts, Lewis R. ; LeBrasseur, Nathan K. ; Robertson, Keith D. / High fat diet and exercise lead to a disrupted and pathogenic DNA methylome in mouse liver. In: Epigenetics. 2017 ; Vol. 12, No. 1. pp. 55-69.
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