Journal Article

Integrative genomic analyses in adipocytes implicate DNA methylation in human obesity and diabetes

King, James W. D., Scott, James, Christiansen, Colette, Castillo-Fernandez, Juan, Brown, Scarlett, Scott, William R., Baranasic, Damir, Soong, Richie, Tan, Sili, Fernandes, Nadia, Williams, Richard, Mohammadi, Borzoueh, Prokopenko, Inga, Jenkinson, Andrew, Elliott, Paul, Hashemi, Majid, Bell, Jordana T., Loh, Marie, Elkalaawy, Mohamed, Zhang, Weihua, Kooner, Jaspal S., Adamo, Marco, McAllan, Liam, Lambie, Nathalie, Lenhard, Boris, Villicaña, Sergio, Batterham, Rachel L., Yang, Youwen, Zudina, Liudmila, Lehne, Benjamin, Cebola, Inês, Chambers, John C., Lagou, Vasiliki

2023

Overview

DNA methylation variations are prevalent in human obesity but evidence of a causative role in disease pathogenesis is limited. Here, we combine epigenome-wide association and integrative genomics to investigate the impact of adipocyte DNA methylation variations in human obesity. We discover extensive DNA methylation changes that are robustly associated with obesity (N = 190 samples, 691 loci in subcutaneous and 173 loci in visceral adipocytes, P < 1 × 10-7). We connect obesity-associated methylation variations to transcriptomic changes at >500 target genes, and identify putative methylation-transcription factor interactions. Through Mendelian Randomisation, we infer causal effects of methylation on obesity and obesity-induced metabolic disturbances at 59 independent loci. Targeted methylation sequencing, CRISPR-activation and gene silencing in adipocytes, further identifies regional methylation variations, underlying regulatory elements and novel cellular metabolic effects. Our results indicate DNA methylation is an important determinant of human obesity and its metabolic complications, and reveal mechanisms through which altered methylation may impact adipocyte functions. DNA methylation variation is associated with human obesity but a whether it plays a causal role in disease pathogenesis is unclear. Here, the authors perfom an integrative genomic study in human adipocytes to show that DNA methylation variations contribute to obesity and type 2 diabetes susceptibility, revealing underlying genomic and molecular mechanisms.

• Publisher: Nature Publishing Group UK,Nature Publishing Group,Nature Portfolio
• Subject: 13/106 / 13/44 / 38/89 / 45/61 / 49/23 / 49/39 / 49/88 / 49/91 / 692/163/2743/393 / 692/699/2743/137/773 / Adipocytes / Adipocytes - metabolism / CRISPR / Deoxyribonucleic acid / Diabetes / Diabetes mellitus (non-insulin dependent) / Diabetes Mellitus - metabolism / DNA / DNA Methylation / Epigenesis, Genetic / Gene sequencing / Gene silencing / Genomic analysis / Genomics / Humanities and Social Sciences / Humans / Metabolism / Molecular modelling / multidisciplinary / Obesity / Obesity - metabolism / Pathogenesis / Regulatory sequences / Science / Science (multidisciplinary) / Transcriptomics / Variation