Genome-Wide Association Analysis Identifies Variants Associated with Nonalcoholic Fatty Liver Disease That Have Distinct Effects on Metabolic Traits

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Speliotes, Elizabeth K. ; Yerges-Armstrong, Laura M. ; Wu, Jun ; Hernaez, Ruben ; Kim, Lauren J. ; Palmer, Cameron D. ; Gudnason, Vilmundur ; Eiriksdottir, Gudny ; Garcia, Melissa E. ; Launer, Lenore J. ; Nalls, Michael A. ; Clark, Jeanne M. ; Mitchell, Braxton D. ; Shuldiner, Alan R. ; Butler, Johannah L. ; Tomas, Marta ; Hoffmann, Udo ; Hwang, Shih-Jen ; Massaro, Joseph M. ; O'Donnell, Christopher J. ; Sahani, Dushyant V. ; Salomaa, Veikko ; Schadt, Eric E. ; Schwartz, Stephen M. ; Siscovick, David S. ; Voight, Benjamin F. ; Carr, J. Jeffrey ; Feitosa, Mary F. ; Harris, Tamara B. ; Fox, Caroline S. ... view all 34 authors (2011)
  • Publisher: Public Library of Science
  • Journal: PLoS Genetics, volume 7, issue 3 (issn: 1553-7390, eissn: 1553-7404)
  • Related identifiers: doi: 10.1371/journal.pgen.1001324, pmc: PMC3053321
  • Subject: Blood Glucose | Non-alcoholic Fatty Liver Disease | NASH CRN | Research Article | coronary-artery-disease ; triglyceride levels ; loci ; heart ; risk ; design ; adults ; steatohepatitis ; PNPLA3 ; susceptibility | Insulin | Nerve Tissue Proteins | Lipase | hepatology | Fatty Liver | Gastroenterology and Hepatology/Hepatology | Quantitative Trait Loci | Tomography, X-Ray Computed | Membrane Proteins | Settore MED/14 - Nefrologia | Mutation, Missense | Polymorphism, Single Nucleotide | Adaptor Proteins, Signal Transducing | GIANT Consortium | 0604 Genetics | obesity | Case-Control Studies | Diabetes and Endocrinology/Obesity | Developmental Biology | Aged | gastroenterology | Middle Aged | genetics and genomics | Lectins, C-Type | Genetics and Genomics/Complex Traits | Chondroitin Sulfate Proteoglycans | Genome-Wide Association Study | Adaptor Proteins, Signal Transducing/genetics Adult Aged Aged, 80 and over Blood Glucose/analysis Case-Control Studies Chondroitin Sulfate Proteoglycans/genetics Cohort Studies Fatty Liver/*genetics/metabolism/radiography Genome-Wide Association Study Humans Insulin/blood Lectins, C-Type/genetics Lipase/genetics Male Membrane Proteins/genetics Middle Aged Mutation, Missense Nerve Tissue Proteins/genetics Polymorphism, Single Nucleotide Quantitative Trait Loci Tomography, X-Ray Computed | Cohort Studies | MAGIC Investigators | GOLD Consortium | Adult | Aged, 80 and over | diabetes | Humans | Male | endocrinology

: Nonalcoholic fatty liver disease (NAFLD) clusters in families, but the only known common genetic variants influencing risk are near PNPLA3. We sought to identify additional genetic variants influencing NAFLD using genome-wide association (GWA) analysis of computed tomography (CT) measured hepatic steatosis, a non-invasive measure of NAFLD, in large population based samples. Using variance components methods, we show that CT hepatic steatosis is heritable (?26%-27%) in family-based Amish, Family Heart, and Framingham Heart Studies (n?=?880 to 3,070). By carrying out a fixed-effects meta-analysis of genome-wide association (GWA) results between CT hepatic steatosis and ?2.4 million imputed or genotyped SNPs in 7,176 individuals from the Old Order Amish, Age, Gene/Environment Susceptibility-Reykjavik study (AGES), Family Heart, and Framingham Heart Studies, we identify variants associated at genome-wide significant levels (p<5�10(-8)) in or near PNPLA3, NCAN, and PPP1R3B. We genotype these and 42 other top CT hepatic steatosis-associated SNPs in 592 subjects with biopsy-proven NAFLD from the NASH Clinical Research Network (NASH CRN). In comparisons with 1,405 healthy controls from the Myocardial Genetics Consortium (MIGen), we observe significant associations with histologic NAFLD at variants in or near NCAN, GCKR, LYPLAL1, and PNPLA3, but not PPP1R3B. Variants at these five loci exhibit distinct patterns of association with serum lipids, as well as glycemic and anthropometric traits. We identify common genetic variants influencing CT-assessed steatosis and risk of NAFLD. Hepatic steatosis associated variants are not uniformly associated with NASH/fibrosis or result in abnormalities in serum lipids or glycemic and anthropometric traits, suggesting genetic heterogeneity in the pathways influencing these traits.