Fine mapping of a linkage peak with integration of lipid traits identifies novel coronary artery disease genes on chromosome 5

BMC Genetics

Research Article

Jessica Johnson¹  David Crosslin¹  Carol Haynes¹  Elaine Dowdy¹  Daniel K Nolan¹  Jacqueline Sebek¹  Beth Sutton¹  Simon G Gregory²  Svati H Shah²  Elizabeth R Hauser²  Michael H Sketch³  William E Kraus³  Christopher B Granger³  David Seo⁴  Pascal Goldschmidt-Clermont⁴  David Crossman⁵ 

[1] Center for Human Genetics, Duke University, Duke Univeristy Medical Center, 905 S. LaSalle Street, 27710, Durham, NC, USA;Center for Human Genetics, Duke University, Duke Univeristy Medical Center, 905 S. LaSalle Street, 27710, Durham, NC, USA;Department of Medicine, Duke University, 2301 Erwin Road, 27710, Durham, NC, USA;Department of Medicine, Duke University, 2301 Erwin Road, 27710, Durham, NC, USA;Miller School of Medicine, University of Miami, 1601 Northwest 12th Avenue, 33136, Miami, FL, USA;University of East Anglia, Norwich Research Park, NR4 7TJ, Norwich, UK;

关键词: Cardiovascular Disease;    Positional Cloning;    Intermediate Phenotype;    Linkage;    Fine Mapping;   

DOI  :  10.1186/1471-2156-13-12

 received in 2011-05-05, accepted in 2012-02-27,  发布年份 2012

来源: Springer

【 摘 要 】

BackgroundCoronary artery disease (CAD), and one of its intermediate risk factors, dyslipidemia, possess a demonstrable genetic component, although the genetic architecture is incompletely defined. We previously reported a linkage peak on chromosome 5q31-33 for early-onset CAD where the strength of evidence for linkage was increased in families with higher mean low density lipoprotein-cholesterol (LDL-C). Therefore, we sought to fine-map the peak using association mapping of LDL-C as an intermediate disease-related trait to further define the etiology of this linkage peak. The study populations consisted of 1908 individuals from the CATHGEN biorepository of patients undergoing cardiac catheterization; 254 families (N = 827 individuals) from the GENECARD familial study of early-onset CAD; and 162 aorta samples harvested from deceased donors. Linkage disequilibrium-tagged SNPs were selected with an average of one SNP per 20 kb for 126.6-160.2 MB (region of highest linkage) and less dense spacing (one SNP per 50 kb) for the flanking regions (117.7-126.6 and 160.2-167.5 MB) and genotyped on all samples using a custom Illumina array. Association analysis of each SNP with LDL-C was performed using multivariable linear regression (CATHGEN) and the quantitative trait transmission disequilibrium test (QTDT; GENECARD). SNPs associated with the intermediate quantitative trait, LDL-C, were then assessed for association with CAD (i.e., a qualitative phenotype) using linkage and association in the presence of linkage (APL; GENECARD) and logistic regression (CATHGEN and aortas).ResultsWe identified four genes with SNPs that showed the strongest and most consistent associations with LDL-C and CAD: EBF1, PPP2R2B, SPOCK1, and PRELID2. The most significant results for association of SNPs with LDL-C were: EBF1, rs6865969, p = 0.01; PPP2R2B, rs2125443, p = 0.005; SPOCK1, rs17600115, p = 0.003; and PRELID2, rs10074645, p = 0.0002). The most significant results for CAD were EBF1, rs6865969, p = 0.007; PPP2R2B, rs7736604, p = 0.0003; SPOCK1, rs17170899, p = 0.004; and PRELID2, rs7713855, p = 0.003.ConclusionUsing an intermediate disease-related quantitative trait of LDL-C we have identified four novel CAD genes, EBF1, PRELID2, SPOCK1, and PPP2R2B. These four genes should be further examined in future functional studies as candidate susceptibility loci for cardiovascular disease mediated through LDL-cholesterol pathways.

【 授权许可】

Unknown   
© Nolan et al; licensee BioMed Central Ltd. 2012. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.