TY - JOUR
T1 - A Combined Linkage and Exome Sequencing Analysis for Electrocardiogram Parameters in the Erasmus Rucphen Family Study
AU - Silva, Claudia T.
AU - Zorkoltseva, Irina V.
AU - Amin, Najaf
AU - Demirkan, Ayse
AU - van Leeuwen, Elisabeth M.
AU - Kors, Jan A.
AU - van den Berg, Marten
AU - Stricker, Bruno H.
AU - Uitterlinden, Andre G.
AU - Kirichenko, Anatoly V.
AU - Witteman, Jacqueline C.M.
AU - Willemsen, Rob
AU - Oostra, Ben A.
AU - Axenovich, Tatiana I.
AU - van Duijn, Cornelia M.
AU - Isaacs, Aaron
PY - 2016/11/8
Y1 - 2016/11/8
N2 - Electrocardiogram (ECG) measurements play a key role in the diagnosis and prediction of cardiac arrhythmias and sudden cardiac death. ECG parameters, such as the PR, QRS, and QT intervals, are known to be heritable and genome-wide association studies of these phenotypes have been successful in identifying common variants; however, a large proportion of the genetic variability of these traits remains to be elucidated. The aim of this study was to discover loci potentially harboring rare variants utilizing variance component linkage analysis in 1547 individuals from a large family-based study, the Erasmus Rucphen Family Study (ERF). Linked regions were further explored using exome sequencing. Five suggestive linkage peaks were identified: two for QT interval (1q24, LOD = 2.63; 2q34, LOD = 2.05), one for QRS interval (1p35, LOD = 2.52) and two for PR interval (9p22, LOD = 2.20; 14q11, LOD = 2.29). Fine-mapping using exome sequence data identified a C > G missense variant (c.713C > G, p.Ser238Cys) in the FCRL2 gene associated with QT (rs74608430; P = 2.8 x 10(-4), minor allele frequency = 0.019). Heritability analysis demonstrated that the SNP explained 2.42% of the trait's genetic variability in ERF (P = 0.02). Pathway analysis suggested that the gene is involved in cytosolic Ca2+ levels (P = 3.3 x 10(-3)) and AMPK stimulated fatty acid oxidation in muscle (P = 4.1 x 10(-3)). Look-ups in bioinformatics resources showed that expression of FCRL2 is associated with ARHGAP24 and SETBP1 expression. This finding was not replicated in the Rotterdam study. Combining the bioinformatics information with the association and linkage analyses, FCRL2 emerges as a strong candidate gene for QT interval.
AB - Electrocardiogram (ECG) measurements play a key role in the diagnosis and prediction of cardiac arrhythmias and sudden cardiac death. ECG parameters, such as the PR, QRS, and QT intervals, are known to be heritable and genome-wide association studies of these phenotypes have been successful in identifying common variants; however, a large proportion of the genetic variability of these traits remains to be elucidated. The aim of this study was to discover loci potentially harboring rare variants utilizing variance component linkage analysis in 1547 individuals from a large family-based study, the Erasmus Rucphen Family Study (ERF). Linked regions were further explored using exome sequencing. Five suggestive linkage peaks were identified: two for QT interval (1q24, LOD = 2.63; 2q34, LOD = 2.05), one for QRS interval (1p35, LOD = 2.52) and two for PR interval (9p22, LOD = 2.20; 14q11, LOD = 2.29). Fine-mapping using exome sequence data identified a C > G missense variant (c.713C > G, p.Ser238Cys) in the FCRL2 gene associated with QT (rs74608430; P = 2.8 x 10(-4), minor allele frequency = 0.019). Heritability analysis demonstrated that the SNP explained 2.42% of the trait's genetic variability in ERF (P = 0.02). Pathway analysis suggested that the gene is involved in cytosolic Ca2+ levels (P = 3.3 x 10(-3)) and AMPK stimulated fatty acid oxidation in muscle (P = 4.1 x 10(-3)). Look-ups in bioinformatics resources showed that expression of FCRL2 is associated with ARHGAP24 and SETBP1 expression. This finding was not replicated in the Rotterdam study. Combining the bioinformatics information with the association and linkage analyses, FCRL2 emerges as a strong candidate gene for QT interval.
KW - genetics
KW - epidemiology
KW - electrocardiography
KW - linkage
KW - exome
KW - MYOSIN HEAVY-CHAIN
KW - GENOME-WIDE ASSOCIATION
KW - QT INTERVAL DURATION
KW - BETA-CARDIAC MYOSIN
KW - HYPERTROPHIC CARDIOMYOPATHY
KW - COMMON VARIANTS
KW - ATRIAL-FIBRILLATION
KW - GENE-MUTATIONS
KW - EXPRESSION PROFILES
KW - COMPUTER-PROGRAM
U2 - 10.3389/fgene.2016.00190
DO - 10.3389/fgene.2016.00190
M3 - Article
C2 - 27877193
SN - 1664-8021
VL - 7
JO - Frontiers in Genetics
JF - Frontiers in Genetics
IS - NOV
M1 - 190
ER -