Abstract
Background -
The P-wave duration (PWD) is an electrocardiographic (ECG) measurement that represents cardiac conduction in the atria. Shortened or prolonged PWD is associated with atrial fibrillation (AF). We used exome chip data to examine the associations between common and rare variants with PWD.
Methods -
Fifteen studies comprising 64,440 individuals (56,943 European, 5,681 African, 1,186 Hispanic, 630 Asian), and ~230,000 variants were used to examine associations with maximum PWD across the 12-lead ECG. Meta-analyses summarized association results for common variants; gene-based burden and SKAT tests examined low-frequency variant-PWD associations. Additionally, we examined the associations between PWD loci and AF using previous AF GWAS.
Results -
We identified 21 common and low-frequency genetic loci (14 novel) associated with maximum PWD, including several AF loci (TTN, CAND2, SCN10A, PITX2, CAV1, SYNPO2L, SOX5, TBX5, MYH6, RPL3L). The top variants at known sarcomere genes (TTN, MYH6) were associated with longer PWD and increased AF risk. However, top variants at other loci (e.g., PITX2 and SCN10A) were associated with longer PWD but lower AF risk.
Conclusions -
Our results highlight multiple novel genetic loci associated with PWD, and underscore the shared mechanisms of atrial conduction and AF. Prolonged PWD may be an endophenotype for several different genetic mechanisms of AF.
Keywords: electrocardiography, population genetics, ECG, atrial fibrillation, exome, Electrophysiology, Genetic, Association Studies, Atrial Fibrillation
P-wave duration (PWD) is an electrocardiographic measurement that reflects cardiac conduction through the atria. PWD variability may implicate intrinsic or acquired properties in the function and structure of atrial conductivity.1 Shortened and prolonged PWD have been repeatedly associated with atrial fibrillation (AF),2, 3 a common and heritable4 arrhythmia that predisposes to stroke, heart failure, and increased mortality.5–7
Although PWD is heritable8, 9 only two genome-wide association studies (GWAS) have been conducted.10, 11 Given the relationship between PWD and AF, examining the genetic determinants of PWD may provide insights into the pathophysiology of AF. Moreover, assessment of coding variation may facilitate identification of AF-specific genes. Therefore, we conducted an exome-chip based analysis focused on rare and common genetic determinants of PWD.
Methods
Each study was reviewed and approved by the local or institutional IRB, and each participant provided consent. Study-specific details are provided in Supplemental Material, under “Description of participating studies” and in Supplemental Table 1. In our primary analysis, we considered loci/genes significantly associated with PWD if a common variant (minor allele frequency [MAF] ≥ 5%) or a gene-based test, including burden or sequence kernel association test [SKAT]12 comprising low-frequency variants [MAF < 5% or MAF <1%]) exceeded exome-wide significance in meta-analyses, after Bonferroni correction. We reported low-frequency variants that exceeded exome-wide significance at significant loci identified in gene-based analyses. The full Methods section is available in the Supplemental Material (under “Methods”). Data supporting the findings of this study can be made available, following reasonable request to the corresponding author.
Results
A total of 64,440 individuals from 4 ethnic groups (56,943 European, 5,681 African, 630 Asian, 1,186 Hispanic) and 15 studies were included in our meta-analysis. The per-study mean age ranged from 46.2–72.6 years; roughly 60% of participants were women (Table 1). For the multi-ethnic single variant analyses, we tested ~26,000 common variants (see Supplemental Table 3 for the exact number of variants included in each analysis). The Quantile-Quantile plots show a small degree of inflation for both PWD residuals (λ=1.10) and inverse normal transformed PWD residuals (λ=1.13; Supplemental Figures 1a-1b). We performed meta-analyses in ethnicity-specific groups (European: λ=1.10–1.13; African: λ=1.03; Supplemental Figures 1c-1f). LD score regression intercepts were 1 (multi-ethnic analyses) and 0.95 (European-specific analyses), suggesting the inflation was mainly due to polygenicity. Meta-analysis results from PWD residuals, and inverse normal transformed PWD residuals were highly correlated across analyses (Pearson’s rho≥0.99, P<2.2×10−16; Supplemental Figure 2).
Table 1.
Study participant characteristics*
| Study | Ancestry | N | Age, years, mean±SD | Sex, women, % | P-wave duration, milliseconds, mean±SD | RR interval, milliseconds, mean±SD |
|---|---|---|---|---|---|---|
| ARIC | European | 8861 | 53.9±5.7 | 54.1 | 106.0±11.8 | 920.5±133.8 |
| African | 2922 | 53.3±5.8 | 62.2 | 111.5±11.9 | 924.2±148.6 | |
| BRIGHT | European | 195 | 60.5±8.9 | 57.4 | 121.1±19.4 | 976.1±186.0 |
| CAMP | European | 1887 | 59.9±10.4 | 37.4 | 106.0±15.8 | 936.8±171.3 |
| CHS | European | 2648 | 72.3±5.4 | 60.7 | 109.9±13.0 | 950.0±145.8 |
| African | 445 | 72.6±5.6 | 64.5 | 112.2±13.1 | 912.8±156.4 | |
| ERF | European | 514 | 49.0±14.3 | 54.1 | 111.2±12.4 | 963.4±152.9 |
| FHS | European | 5677 | 47.2±13.3 | 55.0 | 105.0±12.0 | 973.7±155.9 |
| INTER99 | European | 5872 | 46.2±7.9 | 51.6 | 104.3±12.5 | 920.4±150.5 |
| KORA | European | 2435 | 47.1±12.8 | 51.9 | 108.0±11.1 | 939.7±147.7 |
| LIFELINES | European | 1914 | 45.2±13.0 | 59.8 | 112.1±12.4 | 897.3±144.5 |
| UHP | European | 1657 | 38.5±12.5 | 55.8 | 109.1±14.6 | 956.5±152.4 |
| MESA | European | 2083 | 61.8±10.1 | 51.8 | 104.4±12.9 | 1054.5±158.9 |
| African | 1131 | 61.3±10.3 | 52.9 | 107.9±12.3 | 1054.4±170.2 | |
| Hispanic | 1186 | 60.6±10.3 | 50.1 | 105.2±12.0 | 1061.0±154.5 | |
| Asian | 630 | 61.3±10.3 | 50.2 | 101.7±11.7 | 1059.0±140.3 | |
| NEO | European | 5119 | 55.6±6.0 | 51.9 | 114.2±13.9 | 933.8±150.5 |
| RS | European | 1740 | 69.5±8.4 | 51.4 | 120.1±12.4 | 859.8±140.6 |
| SHIP-0 | European | 2653 | 46.5±15.4 | 51.8 | 109.5±11.2 | 853.6±147.8 |
| SHIP-Trend | European | 2922 | 47.9±14.6 | 52.5 | 113.1±11.9 | 911.3±134.5 |
| WHI | European | 10766 | 65.8±6.6 | 100 | 107.2±11.9 | 914.3±134.2 |
| African | 1183 | 64.3±6.5 | 100 | 110.6±11.5 | 920.2±143.7 | |
N: sample size
Common variant analyses
We identified 41 exome-wide significant variants at 18 loci (P-value <1.9×10−6; Supplemental Figure 3) in our multi-ethnic meta-analysis of PWD residuals (Table 2). Eleven of the 18 PWD loci are novel, representing the following nearest genes: PKP1 (rs1626370, P=2×10−6), TTN (rs2042995, P=4×10−7), PITX2 (rs17042171, P=8×10−11), ARHGAP10 (rs6845865, P=2×10−10), TCF21 (rs2327429, P=2×10−7), CDK6 (rs2282978, P=2×10−8), SYNPO2L (rs3812629, P=4×10−7), SOX5 (rs17287293, P=3×10−7), HMGA2 (rs8756, P=7×10−7), GORS4 (rs17608766, P=9×10−15), and MC4R (rs12970134, P=1×10−6). Another novel locus was associated only with the inverse normal transformed PWD (JAZF1, P=1×10−6; Table 2; Supplemental Table 4). The PWD variance explained by each of the top variants ranged from 0.04% to 0.44%; the top variants in aggregate explained ~1.6% of the phenotypic variance. Associations for SCN10A and PITX2 regions were moderately heterogeneous across individual studies (I2 ≥45%; Table 2). Of these 19 multi-ethnic significantly associated loci, 13 were significantly associated with PWD residuals in the European ancestry subset, and one (SCN10A) was observed in individuals of African ancestry (Supplemental Table 4). No additional loci were observed in analyses restricted to either European or African ancestry (Supplemental Figure 4 for Manhattan plots).
Table 2.
Top exome-wide significant variants for P-wave duration in multi-ethnic meta-analysis*
| Residuals | Inverse normal transformed residuals | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Locus | Closest gene | Location | rsID | EA | Function | N | EAF | Beta | SE | P | h2(%) | I2(%) | Beta | SE | P | h2(%) | I2(%) |
| Novel loci | |||||||||||||||||
| 1 | PKP1 | 1q32.1 | rs1626370 | A | missense | 64431 | 0.2 | 0.39 | 0.08 | 2×10−6 | 0.04 | 2 | 0.03 | 0.01 | 2×10−6 | 0.04 | 0 |
| 2 | TTN† | 2q31.2 | rs2042995 | C | intron | 64410 | 0.3 | 0.41 | 0.08 | 4×10−7 | 0.04 | 8 | 0.03 | 0.01 | 5×10−7 | 0.04 | 12 |
| 3 | DLEC1‡ | 3p22.2 | rs116202356 | G | missense | 64331 | 0.98 | 1.72 | 0.27 | 2×10−10 | 0.06 | 20 | 0.14 | 0.02 | 2×10−10 | 0.06 | 19 |
| 4 | PITX2 | 4q25 | rs17042171 | C | intergenic | 64399 | 0.9 | 0.64 | 0.10 | 8×10−11 | 0.07 | 45 | 0.06 | 0.01 | 2×10−11 | 0.07 | 50 |
| 5 | ARHGAP10 | 4q31.23 | rs6845865 | C | intron | 64437 | 0.2 | 0.54 | 0.09 | 2×10−10 | 0.06 | 0 | 0.05 | 0.01 | 9×10−11 | 0.07 | 0 |
| 6 | TCF21/TARID | 6q23.2 | rs2327429 | C | upstream | 64434 | 0.3 | 0.39 | 0.07 | 2×10−7 | 0.04 | 13 | 0.03 | 0.01 | 1×10−7 | 0.04 | 9 |
| 7 | JAZF1 | 7p15.1 | rs864745 | C | intron | 64388 | 0.5 | 0.32 | 0.07 | 2×10−6 | 0.04 | 0 | 0.03 | 0.01 | 1×10−6 | 0.04 | 0 |
| 8 | CDK6 | 7q21.2 | rs2282978 | C | intron | 64424 | 0.4 | 0.39 | 0.07 | 2×10−8 | 0.05 | 0 | 0.03 | 0.01 | 5×10−8 | 0.05 | 6 |
| 9 | SYNPO2L | 10q22.2 | rs3812629 | A | missense | 64423 | 0.2 | 0.47 | 0.09 | 4×10−7 | 0.04 | 0 | 0.04 | 0.01 | 7×10−7 | 0.04 | 0 |
| 10 | SOX5 | 12p12.1 | rs17287293 | A | intergenic | 64429 | 0.9 | 0.49 | 0.10 | 3×10−7 | 0.04 | 0 | 0.04 | 0.01 | 3×10−7 | 0.04 | 0 |
| 11 | HMGA2 | 12q14.3 | rs8756 | C | 3’-UTR | 64418 | 0.5 | 0.33 | 0.07 | 7×10−7 | 0.04 | 0 | 0.03 | 0.01 | 5×10−7 | 0.04 | 0 |
| 12 | RPL3L‡ | 16p13.3 | rs113956264 | C | missense | 64403 | 0.97 | 0.99 | 0.20 | 1×10−6 | 0.04 | 0 | 0.08 | 0.02 | 4×10−6 | 0.03 | 10 |
| 13 | GOSR2 | 17q21.32 | rs17608766 | C | intron | 64435 | 0.1 | 0.80 | 0.10 | 9×10−15 | 0.09 | 0 | 0.07 | 0.01 | 1×10−15 | 0.10 | 0 |
| 14 | MC4R | 18q21.32 | rs12970134 | A | intergenic | 64430 | 0.3 | 0.38 | 0.08 | 1×10−6 | 0.04 | 0 | 0.03 | 0.01 | 7×10−6 | 0.03 | 0 |
| Previously reported loci | |||||||||||||||||
| 15 | CAND2 | 3p25.2 | rs11718898 | T | missense | 52472 | 0.3 | 0.39 | 0.08 | 9×10−7 | 0.05 | 0 | 0.03 | 0.01 | 8×10−7 | 0.05 | 0 |
| CAND2 | 3p25.2 | rs3732675 | T | missense | 64395 | 0.4 | 0.34 | 0.07 | 1×10−6 | 0.04 | 0 | 0.03 | 0.01 | 3×10−7 | 0.04 | 0 | |
| 16 | SCN10A | 3p22.2 | rs6800541 | C | intron | 64423 | 0.4 | 1.18 | 0.07 | 4×10−63 | 0.44 | 51 | 0.10 | 0.01 | 2×10−65 | 0.45 | 45 |
| 17 | HCN1 | 5p12 | rs6892594 | T | intron | 64427 | 0.4 | 0.43 | 0.07 | 2×10−10 | 0.06 | 0 | 0.04 | 0.01 | 3×10−10 | 0.06 | 0 |
| 18 | CAV1 | 7q31.2 | rs3807989 | A | intron | 64430 | 0.4 | 0.47 | 0.07 | 2×10−12 | 0.08 | 0 | 0.04 | 0.01 | 8×10−13 | 0.08 | 0 |
| 19 | FADS1 | 11q12.2 | rs174546 | C | 3’-UTR | 64430 | 0.7 | 0.50 | 0.07 | 2×10−11 | 0.07 | 9 | 0.04 | 0.01 | 6×10−12 | 0.07 | 9 |
| 20 | TBX5 | 12q24.21 | rs883079 | C | 3’-UTR | 64435 | 0.3 | 0.80 | 0.07 | 9×10−28 | 0.19 | 17 | 0.07 | 0.01 | 6×10−29 | 0.19 | 11 |
| 21 | MYH6 | 14q11.2 | rs452036 | A | intron | 64422 | 0.4 | 0.68 | 0.07 | 8×10−23 | 0.15 | 0 | 0.06 | 0.01 | 1×10−23 | 0.16 | 0 |
EA: effect allele, N: sample size, EAF: effect allele frequency, Beta: the changes of (inverse normal transformed) P-wave duration residuals per 1 effect allele increment, SE: standard error, h2: SNP heritability estimate. P-values in bold are at exome-wide significance.
Locus with minor allele frequency <5% is also identified from gene-based analysis
Locus with minor allele frequency <5% identified from gene-based analysis
In conditional analyses, we identified additional signals from SCN5A and SCN10A (Supplemental Table 5). For inverse normal transformed PWD residuals, an additional signal (rs10033464, P-value=2×10−7) was observed in the PITX2 region. In addition to the 7 previously known loci that exceeded exome-wide significance, we observed 2 nominally significant associations with PWD at SSBP3 and EPAS1 (P <0.001; Supplemental Table 6).10
Gene-based analyses
We performed burden and SKAT tests for associations with PWD for 16,949 genes with a cumulative minor allele count (cMAC) ≥10, including 192,455 low-frequency and rare variants, in the multi-ethnic sample. We identified 4 genes associated with PWD using SKAT tests aggregating functional variants with MAF <5% (TTN, P=6×10−27; DLEC1, P=2×10−13; SCN10A, P=7×10−8; and RPL3L, P=9×10−7; Table 3). We identified an additional association (TTC21A, P=1×10−6) using inverse normal transformed PWD residuals in the European-specific analysis. Using burden tests, we identified TTN and MUC5B as PWD-associated genes in the multi-ethnic and European-specific analyses. We did not observe any significant associations for variants with MAF <1%, suggesting that identified associations were mainly driven by low-frequency, not rare, variants. Among these significant genes, we identified two additional low-frequency missense variants exceeding exome-wide significance for association (DLEC1, rs116202356, Glu264Lys, P=2×10−10; RPL3L, rs113956264, Val262Met, P=1×10−6; Table 2), which were not reported in our single variant tests.
Table 3.
Top gene in low frequency variant gene-based analyses of P-wave duration stratified by ancestral group.
| Multi-ethnic | European | African | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Residuals | Inverse normal transformed residuals | Residuals | Inverse normal transformed residuals | Residuals | Inverse normal transformed residuals | |||||||
| Gene | Var# | cMAC | P† | P | Var# | cMAC | P | P | Var# | cMAC | P | P |
| SKAT | ||||||||||||
| TTN | 775 | 276986 | 5×10−27 | 5×10−26 | 704 | 215801 | 5×10−27 | 1×10−26 | 536 | 23041 | 0.59 | 0.71 |
| DLEC1 | 57 | 10419 | 2×10−13 | 2×10−13 | 55 | 6937 | 2×10−12 | 3×10−12 | 39 | 2568 | 0.70 | 0.73 |
| TTC21A | 37 | 12207 | 1×10−5 | 5×10−6 | 32 | 10900 | 4×10−6 | 1×10−6 | 28 | 1250 | 0.98 | 0.98 |
| SCN10A | 61 | 16550 | 7×10−8 | 9×10−9 | 47 | 12804 | 2×10−7 | 4×10−8 | 34 | 524 | 0.84 | 0.81 |
| RPL3L | 26 | 8510 | 1×10−6 | 4×10−6 | 25 | 6742 | 2×10−6 | 1×10−5 | 18 | 265 | 0.33 | 0.21 |
| Burden | ||||||||||||
| TTN | 775 | 276986 | 1×10−14 | 8×10−14 | 704 | 215801 | 1×10−20 | 4×10−18 | 536 | 23041 | 0.26 | 0.27 |
| MUC5B | 68 | 36414 | 7×10−6 | 1×10−5 | 63 | 25110 | 3×10−6 | 6×10−6 | 58 | 2846 | 0.59 | 0.56 |
Var#: number of variants included in the gene set, cMAC: cumulative minor allele count.
P-values in bold exceed the exome-wide significance threshold (P-value <3.0×10−6, 3.1×10−6, and 3.5×10−6 for individuals of multi-ethnic, European, and African ancestries, respectively).
eQTL analyses between genes at PWD loci and gene expression
We assessed eQTL associations for top variants and proxies (linkage disequilibrium (LD): r2>0.8; 1000 Genomes: phase 3 version 5, all individuals from LDlink13) in two heart tissues from GTEx version 7 (right atrial appendage (RAA) and left ventricle (LV); Supplemental Table 7).14 Six loci were associated with significant changes in gene expression, especially in the RAA, including 2 known PWD loci (HCN1, FADS1) and 4 novel loci (TTN, TCF21, JAZF1, SYNPO2L) (Supplemental Table 7). The alleles associated with longer PWD at HCN1 and SYNPO2L had lower expression of these genes in RAA tissues. In contrast, alleles at the JAZF1 and FADS1 loci were associated with higher gene expression in the RAA and LV, respectively. Gene expression directionality was consistent across RAA and LV tissues. Expression level changes of JAZF1 and MYOZ1 per allele in RAA tissue were significantly higher than in the LV. We observed more significant eQTLs in the RAA than the LV, as expected, because P-wave duration reflects atrial conduction.
Relation of the PWD with ECG traits identifies 4 novel and 5 known loci
We examined associations between PWD loci and other ECG measurements from large-scale association studies (Supplemental Table 8). We identified 8 novel (TTN, DLEC1, ARHGAP10, JAZF1, SYNPO2L, SOX5, HMGA2, GOSR2), and 5 known (SCN10A, CAV1, FADS1, TBX5, MYH6) PWD loci, all previously reported to be associated with PR interval, PR segment, QRS duration, QT interval, or RR interval. Variants at TCF21, SYNPO2L, and MYH6 were associated with PR interval in recent large-scale genetic association studies,15–17 but the top variants in our PWD analysis were in low to moderate linkage disequilibrium with top variants from these earlier analyses (LD: r2 <0.8; 1000 Genomes: phase 3 version 5, all individuals) .
Overlap between PWD loci and AF
Fourteen PWD loci were associated with AF risk in a recent AF GWAS18 (P <0.0024=0.05/21 loci; Figure 1 and Supplemental Table 8). Two loci in well-known AF gene regions, PITX2 and TTN, were novel PWD loci. Among these 14 loci, 6 were associated with longer PWD and higher AF risk (TTN, TCF21, SOX5, GOSR2, MC4R, MYH6), whereas 8 were associated with longer PWD but lower AF risk (DLEC1, PITX2, CDK6, SYNPO2L, CAND2, SCN10A, CAV1, TBX5).
Figure 1.
P-wave duration loci and atrial fibrillation risk. The x-axis represents the association between the top P-wave duration (PWD) loci and PWD in -log10 scale. The y-axis represents the association P-value between the top PWD loci and atrial fibrillation (AF) risk (-log10 scale). Variants above y=0 refer to loci associated with longer PWD and higher AF risk (colored in yellow). Variants below y=0 refer to loci associated with longer PWD but lower AF risk (colored in blue). Displayed results are from the multi-ethnic meta-analysis of PWD residuals. Associations with AF were derived from a recent AF GWAS.18 Dashed lines show the significance threshold for the current exome-wide analysis (vertical; P-value<1.9×10−6) and for prior genome-wide analyses of AF (horizontal; P-value<5×10−8). The dotted line represents the significance cutoff after Bonferroni correction (horizontal; P-value<2.4×10−3=0.05/21 PWD loci).
Discussion
In a multi-ancestry study comprising ~65,000 individuals, we identified 12 novel and 7 previously reported loci related to PWD in a meta-analysis of common exome chip variants. After aggregating rare and low-frequency exonic variants, we identified 6 genes, including 2 additional low-frequency variants potentially related to PWD, and loci with specific patterns of association for PWD and AF risk. These findings suggest that AF may result from multiple genetic mechanisms, and PWD may be an endophenotype for these mechanisms.
Our study extends the literature on the genetic components underlying atrial conduction, and the relationship between PWD and AF risk. In comparison to earlier genetic association studies of PWD,10, 11 we predominantly focused on genetic variants in coding regions (Table 2). In total, we identified 21 common variant loci related to PWD. The top common variants explain ~1.6% of the phenotypic variance in PWD. Our gene-based analyses also highlight the importance of low-frequency variants contributing to PWD in genes such as TTN, SCN10A, and RPL3L.
Our findings have two major implications. First, associated loci span genes involved in the development and maintenance of adult cardiac tissue (PITX2, TCF21, HMGA2, NKX2-5, TBX5, CAND2, CDK6), muscle and sarcomere structure (TTN, SYNPO2L, SOX5, MYH6, RPL3L), ion channel function (HCN1, SCN10A), and cell-cell contact (PKP1, ARHGAP10, CAV1). We additionally noted several genes with a role in metabolism (JAZF1, CDK6, HMGA2, MC4R) though the connection to AF is less clear.19–22 The transcription factor PITX2 is the top susceptibility locus for AF. Decreased Pitx2 expression in the adult left atrium is associated with AF in humans,23 and abnormal cardiac conduction and low-voltage P-waves in knockout mice.24 PITX2 is activated by TBX5 to co-regulate a number of membrane effector genes (such as SCN5A, GJA5 and RYR2). Reduction of Tbx5 expression in a mouse model decreased myocardial automaticity.25 TCF21 is a transcription factor required during embryogenesis for formation of heart tissue, and is involved in fibroblast generation after injury in adults.26 The nuclear scaffolding protein HMGA2 trans-activates the heart specific transcription factor NKX2-5.27 HMGA overexpression in mice mediates the response to pressure-overload induced cardiac remodeling.28 CAND2 suppresses myogenin degradation and directs cardiac progenitor cells towards a myocyte fate.29
Titin (TTN) is a major structural component of the sarcomere, required for contractile function in cardiomyocytes. Loss of function mutations in TTN are associated with early-onset AF30 and dilated cardiomyopathy.31 Cytoskeletal Heart-enriched Actin-associated Protein (CHAP, aka SYNPO2L), is a Z-disc protein; zebrafish knockdown models display hypertrophy and delayed conduction,32 and the locus has been associated with AF in GWAS.18 SOX5 is a master regulator of cell fate in embryonic development.33 In drosophila, SOX5 knockdown results in decreased heart rate and increased cardiac wall thickness.34 MYH6, specifically expressed in the atria, forms the thick filament in cardiac smooth muscle; mutations are associated with cardiomyopathies,35 sinus node dysfunction,36 and congenital heart disease.37 Some identified genes are important for atrial conduction, including HCN138 and SCN10A39 which govern potassium, and late sodium channel currents, respectively. The proteins ARHGAP10,40 PKP1,41 and CAV1,42 are involved in cell-cell contact and are necessary for efficient signal conduction. The ribosomal protein RPL3L is specifically expressed in skeletal muscle and heart; coding variants in this gene are associated with AF.43
Second, our study implicates PWD as a powerful endophenotype for understanding the biological mechanisms of AF. Fifteen loci identified in our study were associated with AF risk in a recent AF GWAS,18 underscoring the genetic correlation between atrial conduction and AF risk. Epidemiological data indicate that PWD variability is associated with AF risk,2, 3 AF recurrence after cardioversion44 and ablation,45 as well as ischemic stroke.46 Generally, we observed that top variants at known sarcomere genes (e.g., TTN, MYH6) were associated with increased PWD and increased AF risk, implicating atrial myopathic pathways in AF susceptibility. We speculate that myopathic pathways predispose individuals to AF via delayed conduction velocity, increased propensity for reentry, and susceptibility to ectopic atrial activity. Similarly, TCF21 and SOX5 are two transcription factors associated with increased PWD and increased AF risk.
In contrast, top variants at SCN10A were associated with increased PWD but reduced AF risk. Other PWD-associated genes, such as PITX2, CAND2, TBX5, and CDK6, contained variants associated with longer PWD and reduced AF risk. The directionality of gene associations observed for PWD and AF risk underscore the complexity of AF susceptibility, while highlighting the potential to leverage PWD to elucidate AF-specific pathways (Figure 2). Whether studying PWD can lead to insights relevant for therapeutic targeting remains unclear.
Figure 2:
Identified P-wave duration associated genes highlight multiple biological pathways for atrial fibrillation risk. Gene with increasing risk of AF coupled with prolonged PWD are listed at the right. Gene with decreasing risk of AF coupled with prolonged PWD are listed at the left. Each gene is accompanied by a diagram representing the biological function of the gene, indicating how the gene may affect PWD.
Our results should be interpreted within the context of our study design. First, the majority of our sample consisted of individuals of European ancestry and may have limited generalizability to non-European ancestries. Studies with broader ethnic/racial diversity are warranted. Second, top variants identified in our study may not directly modulate PWD, a limitation of most genetic association studies. Biological characterization of loci is needed to conclusively link variants to function. Third, ascertainment of rare variation is limited using the exome-chip, and future analyses of sequence data are warranted. Fourth, despite a relatively large sample, our findings explained a small proportion of phenotypic variance. Because the additive SNP-based heritability of PWD has been estimated to be as high as 19%,8 our results highlight the fact that much of the genetic susceptibility to PWD remains unexplained. Larger samples, genome-wide assessments, and examination of rare variation may be necessary to identify additional loci for PWD.
In conclusion, we identified 14 novel loci in common and low-frequency variant analyses and 6 gene regions in a low-frequency variant analysis for PWD. Our findings highlight the shared genetic components of atrial conduction and AF risk, and illustrate the diverse biological pathways affecting atrial conduction and mechanisms leading to AF.
Supplementary Material
Acknowledgments:
Complete acknowledgements by study are available in the Supplemental materials. The Genotype-Tissue Expression (GTEx) Project was supported by the Common Fund of the Office of the Director of the National Institutes of Health, and by NCI, NHGRI, NHLBI, NIDA, NIMH, and NINDS. The data used for the analyses described in this manuscript were obtained from the GTEx Portal on 10/05/2018 and 01/25/2020.
Sources of Funding: Dr. Weng is supported by an American Heart Association (AHA) Postdoctoral Fellowship Award (17POST33660226). This work was supported by an AHA Strategically Focused Research Networks (SFRN) postdoctoral fellowship to Drs. Weng and Hall (18SFRN34110082). Funded in part by training grant (National Institute of General Medical Sciences) 5T32GM07814 (Dr. Bihlmeyer) and R01HL116747 (Drs. Arking and Bihlmeyer), and R01 HL111089 (Dr. Arking). This material is based on work supported by the National Science Foundation Graduate Research Fellowship under Grant No. DGE-1232825 (Dr. Bihlmeyer). Any opinion, findings, and conclusions or recommendations expressed in this material are those of the authors(s) and do not necessarily reflect the views of the National Science Foundation. Additional support was provided by AHA grant 16EIA26410001 (Dr. Alonso) and National, Heart, Lung and Blood Institute grant K24HL148521 (Dr. Alonso). Dr. Ramírez was supported by Medical Research Council grant MR/N025083/1, by the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007–2013) under REA grant agreement no. 608765 and from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement No 786833”. Dr. Sotoodehnia is supported by the following grants from the NIH: R01HL141989, HL116747, and R01 HL111089, and by the Laughlin Family Fund. Dr. Kornej was supported by the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement No 838259. Dr. Benjamin is supported by NIH grants HHSN26818HV00006R; 75N92019D00031; R01HL092577; 1R01HL128914; and American Heart Association 18SFRN34110082. Dr. Lunetta is supported by R01 HL092577, AHA 18SFRN34230127, and 18SFRN34150007. Dr. Ellinor is supported by the Fondation Leducq (14CVD01), by grants from the NIH (1RO1HL092577, R01HL128914, K24HL105780), and by a grant from the AHA (18SFRN34110082). Dr. Lubitz is supported by NIH grant 1R01HL139731 and AHA 18SFRN34250007. Additional funding and acknowledgments for each participating study are provided in the supplemental materials.
Disclosures: Dr. Lubitz receives sponsored research support from Bristol Myers Squibb / Pfizer, Bayer AG, and Boehringer Ingelheim, and has consulted for Bristol Myers Squibb / Pfizer and Bayer AG. Dr. Ellinor is supported by a grant from Bayer AG to the Broad Institute focused on the genetics and therapeutics of cardiovascular diseases. Dr. Ellinor has also served on advisory boards or consulted for Bayer AG, Quest Diagnostics, Novartis and MyoKardia. Dr. Mook-Kanamori is a part-time clinical research consultant for Metabolon, Inc. The UMCG, which employs Dr. de Boer, has received research grants and/or fees from AstraZeneca, Abbott, Bristol-Myers Squibb, Novartis, Novo Nordisk, and Roche. Dr. de Boer received personal fees from Abbott, AstraZeneca, MandalMed Inc, Novartis, and Roche. Psaty serves on the Steering Committee of the Yale Open Data Access Project funded by Johnson & Johnson.
Nonstandard Abbreviations and Acronyms
- AF
atrial fibrillation
- cMAC
cumulative minor allele count
- GWAS
genome-wide association studies
- LV
left ventricle
- MAF
minor allele frequency
- PWD
P-wave duration
- RAA
right atrial appendage
- SKAT
sequence kernel association test
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