Multi-ancestry GWAS of the electrocardiographic PR interval identifies 202 loci underlying cardiac conduction.
Arrhythmias, Cardiac
/ genetics
Cardiovascular Diseases
/ genetics
Electrocardiography
Endophenotypes
Female
Gene Expression
Genetic Loci
/ genetics
Genetic Predisposition to Disease
/ genetics
Genetic Variation
Genome-Wide Association Study
Humans
Male
Multifactorial Inheritance
Quantitative Trait Loci
/ genetics
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
21 05 2020
21 05 2020
Historique:
received:
02
08
2019
accepted:
18
03
2020
entrez:
23
5
2020
pubmed:
23
5
2020
medline:
18
8
2020
Statut:
epublish
Résumé
The electrocardiographic PR interval reflects atrioventricular conduction, and is associated with conduction abnormalities, pacemaker implantation, atrial fibrillation (AF), and cardiovascular mortality. Here we report a multi-ancestry (N = 293,051) genome-wide association meta-analysis for the PR interval, discovering 202 loci of which 141 have not previously been reported. Variants at identified loci increase the percentage of heritability explained, from 33.5% to 62.6%. We observe enrichment for cardiac muscle developmental/contractile and cytoskeletal genes, highlighting key regulation processes for atrioventricular conduction. Additionally, 8 loci not previously reported harbor genes underlying inherited arrhythmic syndromes and/or cardiomyopathies suggesting a role for these genes in cardiovascular pathology in the general population. We show that polygenic predisposition to PR interval duration is an endophenotype for cardiovascular disease, including distal conduction disease, AF, and atrioventricular pre-excitation. These findings advance our understanding of the polygenic basis of cardiac conduction, and the genetic relationship between PR interval duration and cardiovascular disease.
Identifiants
pubmed: 32439900
doi: 10.1038/s41467-020-15706-x
pii: 10.1038/s41467-020-15706-x
pmc: PMC7242331
doi:
Types de publication
Journal Article
Meta-Analysis
Langues
eng
Sous-ensembles de citation
IM
Pagination
2542Subventions
Organisme : NHLBI NIH HHS
ID : R01 HL139731
Pays : United States
Organisme : NHLBI NIH HHS
ID : R01 HL120393
Pays : United States
Organisme : NHLBI NIH HHS
ID : U01 HL120393
Pays : United States
Organisme : NHLBI NIH HHS
ID : K01 HL140187
Pays : United States
Organisme : NHLBI NIH HHS
ID : R01 HL105756
Pays : United States
Organisme : NIEHS NIH HHS
ID : P30 ES007033
Pays : United States
Organisme : NHLBI NIH HHS
ID : K24 HL148521
Pays : United States
Organisme : Medical Research Council
ID : MR/N025083/1
Pays : United Kingdom
Organisme : British Heart Foundation
ID : PG/20/18/35058
Pays : United Kingdom
Organisme : NHLBI NIH HHS
ID : R01 HL092577
Pays : United States
Organisme : NHLBI NIH HHS
ID : U01 HL130114
Pays : United States
Organisme : Medical Research Council
ID : G9521010
Pays : United Kingdom
Organisme : British Heart Foundation
ID : PG/17/59/33139
Pays : United Kingdom
Organisme : Medical Research Council
ID : MC_UU_00007/10
Pays : United Kingdom
Organisme : NHLBI NIH HHS
ID : U01 HL137162
Pays : United States
Références
Cheng, S. et al. Long-term outcomes in individuals with prolonged PR interval or first-degree atrioventricular block. JAMA 301, 2571–7 (2009).
pubmed: 19549974
pmcid: 2765917
doi: 10.1001/jama.2009.888
Alonso, A. et al. Simple risk model predicts incidence of atrial fibrillation in a racially and geographically diverse population: the CHARGE-AF consortium. J. Am. Heart Assoc. 2, e000102 (2013).
pubmed: 23537808
pmcid: 3647274
doi: 10.1161/JAHA.112.000102
Rasmussen, P. V. et al. Electrocardiographic PR Interval Duration and Cardiovascular Risk: Results From the Copenhagen ECG Study. Can. J. Cardiol. 33, 674–681 (2017).
pubmed: 28449838
doi: 10.1016/j.cjca.2017.02.015
Butler, A. M. et al. Novel loci associated with PR interval in a genome-wide association study of 10 African American cohorts. Circ. Cardiovasc. Genet. 5, 639–46 (2012).
pubmed: 23139255
pmcid: 3560365
doi: 10.1161/CIRCGENETICS.112.963991
Chambers, J. C. et al. Genetic variation in SCN10A influences cardiac conduction. Nat. Genet. 42, 149–52 (2010).
pubmed: 20062061
doi: 10.1038/ng.516
Holm, H. et al. Several common variants modulate heart rate, PR interval and QRS duration. Nat. Genet. 42, 117–22 (2010).
pubmed: 20062063
doi: 10.1038/ng.511
Hong, K. W. et al. Identification of three novel genetic variations associated with electrocardiographic traits (QRS duration and PR interval) in East Asians. Hum. Mol. Genet. 23, 6659–67 (2014).
pubmed: 25035420
doi: 10.1093/hmg/ddu374
Pfeufer, A. et al. Genome-wide association study of PR interval. Nat. Genet. 42, 153–9 (2010).
pubmed: 20062060
pmcid: 2850197
doi: 10.1038/ng.517
Sano, M. et al. Genome-wide association study of electrocardiographic parameters identifies a new association for PR interval and confirms previously reported associations. Hum. Mol. Genet. 23, 6668–76 (2014).
pubmed: 25055868
doi: 10.1093/hmg/ddu375
van Setten, J. et al. PR interval genome-wide association meta-analysis identifies 50 loci associated with atrial and atrioventricular electrical activity. Nat. Commun. 9, 2904 (2018).
pubmed: 30046033
pmcid: 6060178
doi: 10.1038/s41467-018-04766-9
Verweij, N. et al. Genetic determinants of P wave duration and PR segment. Circ. Cardiovasc. Genet. 7, 475–81 (2014).
pubmed: 24850809
pmcid: 4141024
doi: 10.1161/CIRCGENETICS.113.000373
van Setten, J. et al. Genome-wide association meta-analysis of 30,000 samples identifies seven novel loci for quantitative ECG traits. Eur. J. Hum. Genet. 27, 952–962 (2019).
Lin, H. et al. Common and rare coding genetic variation underlying the electrocardiographic PR interval. Circ. Genom. Precis Med 11, e002037 (2018).
pubmed: 29748316
pmcid: 5951629
Genomes Project, C. et al. A global reference for human genetic variation. Nature 526, 68–74 (2015).
doi: 10.1038/nature15393
Liu, Y. et al. SPSB3 targets SNAIL for degradation in GSK-3beta phosphorylation-dependent manner and regulates metastasis. Oncogene 37, 768–776 (2018).
pubmed: 29059170
doi: 10.1038/onc.2017.370
Holm, H. et al. A rare variant in MYH6 is associated with high risk of sick sinus syndrome. Nat. Genet 43, 316–20 (2011).
pubmed: 21378987
pmcid: 3066272
doi: 10.1038/ng.781
Thorolfsdottir, R. B. et al. A Missense Variant in PLEC Increases Risk of Atrial Fibrillation. J. Am. Coll. Cardiol. 70, 2157–2168 (2017).
pubmed: 29050564
pmcid: 5704994
doi: 10.1016/j.jacc.2017.09.005
Consortium, G. T. et al. Genetic effects on gene expression across human tissues. Nature 550, 204–213 (2017).
doi: 10.1038/nature24277
Schmitt, A. D. et al. A compendium of chromatin contact maps reveals spatially active regions in the human genome. Cell Rep. 17, 2042–2059 (2016).
pubmed: 27851967
pmcid: 5478386
doi: 10.1016/j.celrep.2016.10.061
Nielsen, J. B. et al. Genome-wide study of atrial fibrillation identifies seven risk loci and highlights biological pathways and regulatory elements involved in cardiac development. Am. J. Hum. Genet 102, 103–115 (2018).
pubmed: 29290336
doi: 10.1016/j.ajhg.2017.12.003
Roselli, C. et al. Multi-ethnic genome-wide association study for atrial fibrillation. Nat. Genet. 50, 1225–1233 (2018).
pubmed: 29892015
pmcid: 6136836
doi: 10.1038/s41588-018-0133-9
Pers, T. H. et al. Biological interpretation of genome-wide association studies using predicted gene functions. Nat. Commun. 6, 5890 (2015).
pubmed: 25597830
pmcid: 4420238
doi: 10.1038/ncomms6890
Sudlow, C. et al. UK biobank: an open access resource for identifying the causes of a wide range of complex diseases of middle and old age. PLoS Med. 12, e1001779 (2015).
pubmed: 25826379
pmcid: 4380465
doi: 10.1371/journal.pmed.1001779
Bermudez-Jimenez, F. J. et al. Novel desmin mutation p.Glu401Asp impairs filament formation, disrupts cell membrane integrity, and causes severe arrhythmogenic left ventricular cardiomyopathy/dysplasia. Circulation 137, 1595–1610 (2018).
pubmed: 29212896
doi: 10.1161/CIRCULATIONAHA.117.028719
Norgett, E. E. et al. Recessive mutation in desmoplakin disrupts desmoplakin-intermediate filament interactions and causes dilated cardiomyopathy, woolly hair and keratoderma. Hum. Mol. Genet. 9, 2761–6 (2000).
pubmed: 11063735
doi: 10.1093/hmg/9.18.2761
Rampazzo, A. et al. Mutation in human desmoplakin domain binding to plakoglobin causes a dominant form of arrhythmogenic right ventricular cardiomyopathy. Am. J. Hum. Genet. 71, 1200–6 (2002).
pubmed: 12373648
pmcid: 385098
doi: 10.1086/344208
Taylor, M. R. et al. Prevalence of desmin mutations in dilated cardiomyopathy. Circulation 115, 1244–51 (2007).
pubmed: 17325244
doi: 10.1161/CIRCULATIONAHA.106.646778
van Tintelen, J. P. et al. Severe cardiac phenotype with right ventricular predominance in a large cohort of patients with a single missense mutation in the DES gene. Heart Rhythm 6, 1574–83 (2009).
pubmed: 19879535
doi: 10.1016/j.hrthm.2009.07.041
Glukhov, A. V. et al. Conduction remodeling in human end-stage nonischemic left ventricular cardiomyopathy. Circulation 125, 1835–47 (2012).
pubmed: 22412072
pmcid: 3351089
doi: 10.1161/CIRCULATIONAHA.111.047274
Gomes, J. et al. Electrophysiological abnormalities precede overt structural changes in arrhythmogenic right ventricular cardiomyopathy due to mutations in desmoplakin-A combined murine and human study. Eur. Heart J. 33, 1942–53 (2012).
pubmed: 22240500
pmcid: 3409421
doi: 10.1093/eurheartj/ehr472
Fukuzawa, A. et al. Interactions with titin and myomesin target obscurin and obscurin-like 1 to the M-band: implications for hereditary myopathies. J. Cell Sci. 121, 1841–51 (2008).
pubmed: 18477606
doi: 10.1242/jcs.028019
Cheng, H. et al. Loss of enigma homolog protein results in dilated cardiomyopathy. Circ. Res 107, 348–56 (2010).
pubmed: 20538684
pmcid: 3684396
doi: 10.1161/CIRCRESAHA.110.218735
Hojayev, B., Rothermel, B. A., Gillette, T. G. & Hill, J. A. FHL2 binds calcineurin and represses pathological cardiac growth. Mol. Cell Biol. 32, 4025–34 (2012).
pubmed: 22851699
pmcid: 3457523
doi: 10.1128/MCB.05948-11
Friedrich, F. W. et al. FHL2 expression and variants in hypertrophic cardiomyopathy. Basic Res. Cardiol. 109, 451 (2014).
pubmed: 25358972
pmcid: 4215105
doi: 10.1007/s00395-014-0451-8
Dierck, F. et al. The novel cardiac z-disc protein CEFIP regulates cardiomyocyte hypertrophy by modulating calcineurin signaling. J. Biol. Chem. 292, 15180–15191 (2017).
pubmed: 28717008
pmcid: 5602380
doi: 10.1074/jbc.M117.786764
Duhme, N. et al. Altered HCN4 channel C-linker interaction is associated with familial tachycardia-bradycardia syndrome and atrial fibrillation. Eur. Heart J. 34, 2768–75 (2013).
pubmed: 23178648
doi: 10.1093/eurheartj/ehs391
Milanesi, R., Baruscotti, M., Gnecchi-Ruscone, T. & DiFrancesco, D. Familial sinus bradycardia associated with a mutation in the cardiac pacemaker channel. N. Engl. J. Med 354, 151–7 (2006).
pubmed: 16407510
doi: 10.1056/NEJMoa052475
Milano, A. et al. HCN4 mutations in multiple families with bradycardia and left ventricular noncompaction cardiomyopathy. J. Am. Coll. Cardiol. 64, 745–56 (2014).
pubmed: 25145517
doi: 10.1016/j.jacc.2014.05.045
Priori, S. G. et al. Mutations in the cardiac ryanodine receptor gene (hRyR2) underlie catecholaminergic polymorphic ventricular tachycardia. Circulation 103, 196–200 (2001).
pubmed: 11208676
doi: 10.1161/01.CIR.103.2.196
Kubo, T. et al. Cloning, sequencing and expression of complementary DNA encoding the muscarinic acetylcholine receptor. Nature 323, 411–6 (1986).
pubmed: 3762692
doi: 10.1038/323411a0
Kurachi, Y. G protein regulation of cardiac muscarinic potassium channel. Am. J. Physiol. 269, C821–30 (1995).
pubmed: 7485449
doi: 10.1152/ajpcell.1995.269.4.C821
Aistrup, G. L. et al. Targeted G-protein inhibition as a novel approach to decrease vagal atrial fibrillation by selective parasympathetic attenuation. Cardiovasc. Res. 83, 481–92 (2009).
pubmed: 19457892
pmcid: 2709464
doi: 10.1093/cvr/cvp148
Dobrev, D. et al. Molecular basis of downregulation of G-protein-coupled inward rectifying K(+) current (I(K,ACh) in chronic human atrial fibrillation: decrease in GIRK4 mRNA correlates with reduced I(K,ACh) and muscarinic receptor-mediated shortening of action potentials. Circulation 104, 2551–7 (2001).
pubmed: 11714649
doi: 10.1161/hc4601.099466
Stavrakis, S. et al. Activating autoantibodies to the beta-1 adrenergic and m2 muscarinic receptors facilitate atrial fibrillation in patients with Graves’ hyperthyroidism. J. Am. Coll. Cardiol. 54, 1309–16 (2009).
pubmed: 19778674
pmcid: 2801559
doi: 10.1016/j.jacc.2009.07.015
Winkler, T. W. et al. Quality control and conduct of genome-wide association meta-analyses. Nat. Protoc. 9, 1192–212 (2014).
pubmed: 24762786
pmcid: 4083217
doi: 10.1038/nprot.2014.071
Willer, C. J., Li, Y. & Abecasis, G. R. METAL: fast and efficient meta-analysis of genomewide association scans. Bioinformatics 26, 2190–1 (2010).
pubmed: 20616382
pmcid: 2922887
doi: 10.1093/bioinformatics/btq340
Higgins, J. P., Thompson, S. G., Deeks, J. J. & Altman, D. G. Measuring inconsistency in meta-analyses. BMJ 327, 557–60 (2003).
pubmed: 12958120
pmcid: 12958120
doi: 10.1136/bmj.327.7414.557
Pruim, R. J. et al. LocusZoom: regional visualization of genome-wide association scan results. Bioinformatics 26, 2336–7 (2010).
pubmed: 20634204
pmcid: 2935401
doi: 10.1093/bioinformatics/btq419
Yang, J., Lee, S. H., Goddard, M. E. & Visscher, P. M. GCTA: a tool for genome-wide complex trait analysis. Am. J. Hum. Genet 88, 76–82 (2011).
pubmed: 21167468
pmcid: 3014363
doi: 10.1016/j.ajhg.2010.11.011
Loh, P. R. et al. Contrasting genetic architectures of schizophrenia and other complex diseases using fast variance-components analysis. Nat. Genet. 47, 1385–92 (2015).
pubmed: 26523775
pmcid: 4666835
doi: 10.1038/ng.3431
McLaren, W. et al. The ensembl variant effect predictor. Genome Biol. 17, 122 (2016).
pubmed: 27268795
pmcid: 4893825
doi: 10.1186/s13059-016-0974-4
Kumar, P., Henikoff, S. & Ng, P. C. Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm. Nat. Protoc. 4, 1073–81 (2009).
doi: 10.1038/nprot.2009.86
pubmed: 19561590
Adzhubei, I., Jordan, D. M. & Sunyaev, S. R. Predicting functional effect of human missense mutations using PolyPhen-2. Curr Protoc Hum Genet Chapter 7, Unit7 20 (2013).
Bernstein, B. E. et al. The NIH roadmap epigenomics mapping consortium. Nat. Biotechnol. 28, 1045–8 (2010).
pubmed: 20944595
pmcid: 3607281
doi: 10.1038/nbt1010-1045
Ward, L. D. & Kellis, M. HaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants. Nucleic Acids Res. 40, D930–4 (2012).
pubmed: 22064851
pmcid: 22064851
doi: 10.1093/nar/gkr917
Barbeira, A. N. et al. Exploring the phenotypic consequences of tissue specific gene expression variation inferred from GWAS summary statistics. Nat. Commun. 9, 1825 (2018).
pubmed: 29739930
pmcid: 5940825
doi: 10.1038/s41467-018-03621-1
Iotchkova, V. et al. GARFIELD classifies disease-relevant genomic features through integration of functional annotations with association signals. Nat. Genet. 51, 343–353 (2019).
pubmed: 30692680
pmcid: 6908448
doi: 10.1038/s41588-018-0322-6
Consortium, E. P. An integrated encyclopedia of DNA elements in the human genome. Nature 489, 57–74 (2012).
doi: 10.1038/nature11247
Buniello, A. et al. The NHGRI-EBI GWAS Catalog of published genome-wide association studies, targeted arrays and summary statistics 2019. Nucleic Acids Res 47, D1005–D1012 (2019).
pubmed: 30445434
doi: 10.1093/nar/gky1120
Staley, J. R. et al. PhenoScanner: a database of human genotype-phenotype associations. Bioinformatics 32, 3207–3209 (2016).
pubmed: 27318201
pmcid: 5048068
doi: 10.1093/bioinformatics/btw373
Purcell, S. et al. PLINK: a tool set for whole-genome association and population-based linkage analyses. Am. J. Hum. Genet. 81, 559–75 (2007).
pubmed: 17701901
pmcid: 1950838
doi: 10.1086/519795