Variants In Atrial Fibrillation Research Articles

Prevalence and implications of cardiomyopathy-associated genetic variants in early-onset atrial fibrillation

Abstract Background Atrial fibrillation (AF) is a common and morbid arrhythmia. Despite a substantial heritable component, genetics does not currently play a role in personalized medicine for AF. Rare genetic variants in genes associated with inherited cardiomyopathies (CMP) are enriched in AF patients. However, prior studies on rare variants in AF mainly relied on hospital-based populations, and knowledge on clinical outcomes remains limited. Purpose We aimed to evaluate the potential diagnostic yield and prognostic implication of pathogenic or likely pathogenic (PLP) genetic variants for CMP in persons with AF, using large population-based cohorts. Methods This study utilized sequencing data and electronic health records (EHR) from the All of Us Researh Program (AllofUs) and UK Biobank (UKB). Using ClinVar, we curated a set of PLP variants in 36 CMP-associated genes and assessed the carrier prevalence overall, in participants with AF, and in participants with early-onset AF (below 65, 55 and 45 years). Next, we used Cox proportional hazards models to evaluate the association between variant carrier status and incident risk of heart failure or CMP, after AF diagnosis. In all time-to-event analyses, individuals with prevalent heart failure or CMP at AF diagnosis were excluded and models were adjusted for age, sex, and principal components of ancestry. Sensitivity analyses were performed requiring a minimum period from AF to HF or CMP, of 1, 3 and 6 months. Results After excluding related individuals, we identified 32,281 (8.19%) and 9,666 (6.06%) AF cases in UKB and AllofUs, respectively. Compared to the overall populations (UKB: 1.15%; AllofUs: 1.36%), PLP variants for CMP were about ~5 times more prevalent in AF with onset before 45 (UKB: 4.98%; AllofUs: 5.26%), ~3 times more prevalent in AF with onset before 55 (UKB: 3.41%; AllofUs: 4.34%) and ~2 times more prevalent in all AF patients (UKB: 2.03%; AllofUs: 2.67%). In turn, AF patients carrying PLP variants had increased risk of developing heart failure or CMP, after AF diagnosis (AllofUs HR 1.81, 1.44-2.29, p<1e10-6, UKB:HR=1.39 1.08-1.78, p<0.01), which remained present when requiring a minimum of 6 months after AF diagnosis (AllofUs:HR 1.70, 1.29-2.25, p<0.001; UKB:HR=1.59, 1.21-2.07, p<0.001). Effect sizes were greater when limiting analysis to AF patients with onset before 65 (cases=1021, HR 1.91, 1.35-2.68, p<0.0001) and before 55 years (cases=384, HR 2.53, 1.55-4.1, p <0.001) in AllofUs. UK Biobank did not reflect this increase (cases<65=513, HR<65=1.27, 0.63-2.39, p<65>0.05). Considering only HF events in AllofUs, the effect remained present (HR 1.70, 1.32-2.19, p<0.0001). Conclusion The yield of CMP-associated PLP variants is substantial among persons with early-onset AF, even when considering a 55 year cutoff. AF patients with PLP variants have an increased risk of future heart failure or CMP. Our results further support the clinical relevance of genetic testing in early-onset AF.Prevalence of CMP variants in AF by age

Genetic basis of atrial fibrillation-on the road to precision medicine

Atrial fibrillation (AF) is the most common cardiac arrhythmia and has complex genetic underpinnings. Despite advancements in treatment, mortality of AF patients remains high. This review discusses the genetic basis of AF and its implications for diagnosis and therapy. Although AF pathology has long been known to include ahereditary component, the first genes associated with AF were not identified until the early 2000s. Subsequent research with genome-wide association studies (GWAS) has implicated other genes and numerous genetic variants in AF. These studies have revealed nearly 140 different regions in the DNA with genome-wide significance associated with AF. In addition to common variants, rare variants with large effects have also been identified. The integration of these genetic findings into clinical practice holds promise for improving AF diagnosis and treatment, moving us closer to precision medicine. However, challenges remain, including the need for more diverse genetic data of non-European ancestry and improved genetic analyses of responses to AF therapy.

Two Novel Functional Mutations in Promoter Region of SCN3B Gene Associated with Atrial Fibrillation.

The sodium voltage-gated channel beta subunit 3 (SCN3B) plays a crucial role in electrically excitable cells and conduction tissue in the heart. Some previous studies have established that genetic modification in sodium voltage-channel genes encoding for the cardiac β-subunits, such as SCN1B, SCN2B, SCN3B and SCN4B, can result in atrial fibrillation (AF). In the current study, we identified two rare variants in 5'UTR (NM_018400.4: c.-324C>A, rs976125894 and NM_018400.4: c.-303C>T, rs1284768362) of SCN3B in two unrelated lone AF patients. Our further functional studies discovered that one of them, the A allele of c.-324C>A (rs976125894), can improve transcriptional activity and may raise SCN3B expression levels. The A allele of c.-324C>A (rs976125894) has higher transcriptional activity when it interacts with GATA4, as we confirmed transcription factor GATA4 is a regulator of SCN3B. To the best of our knowledge, the current study is the first to demonstrate that the gain-of-function mutation of SCN3B can produce AF and the first to link a mutation occurring in the non-coding 5'UTR region of SCN3B to lone AF. The work also offers empirical proof that GATA4 is a critical regulator of SCN3B gene regulation. Our findings may serve as an encyclopedia for AF susceptibility variants and can also provide insight into the investigation of the functional mechanisms behind AF variants discovered by genetic methods.

Atrial fibrillation\u2014a complex polygenetic disease

Atrial fibrillation (AF) is the most common type of arrhythmia. Epidemiological studies have documented a substantial genetic component. More than 160 genes have been associated with AF during the last decades. Some of these were discovered by classical linkage studies while the majority relies on functional studies or genome-wide association studies. In this review, we will evaluate the genetic basis of AF and the role of both common and rare genetic variants in AF. Rare variants in multiple ion-channel genes as well as gap junction and transcription factor genes have been associated with AF. More recently, a growing body of evidence has implicated structural genes with AF. An increased burden of atrial fibrosis in AF patients compared with non-AF patients has also been reported. These findings challenge our traditional understanding of AF being an electrical disease. We will focus on several quantitative landmark papers, which are transforming our understanding of AF by implicating atrial cardiomyopathies in the pathogenesis. This new AF research field may enable better diagnostics and treatment in the future.

Annotation of susceptibility SNPs associated with atrial fibrillation.

Objective: Genome-wide association studies (GWAS) and the candidate gene based association studies have identified a panel of variants associated with atrial fibrillation (AF), however, most of the identified single nucleotide polymorphisms (SNPs) were found located within intergenic or intronic genomic regions, and whether the positive SNPs have a real biological function is unknown, and the real disease causing gene need to be studied.Results: The current results of the genetic studies including common variants identified by GWAS (338 index SNPs) and candidate gene based association studies (40 SNPs) were summarized.Conclusion: Our study suggests the relationship between genetic variants and possible targeted genes, and provides insight into potential genetic pathways underlying AF incidence and development. The results may provide an encyclopedia of AF susceptibility SNPs and shed light on the functional mechanisms of AF variants identified through genetic studies.Methods: We summarized AF susceptibility SNPs identified by GWAS and candidate gene based association studies, and give a comprehensive functional annotation of all these AF susceptibility loci. by genomic annotation, microRNA binding prediction, promoter activity analysis, enhancer activity analysis, transcription factors binding activity prediction, expression quantitative trait loci (eQTL) analysis, long-range transcriptional regulatory function analysis, gene ontology and pathway enrichment analysis.

Differential Association of Cx37 and Cx40 Genetic Variants in Atrial Fibrillation with and without Underlying Structural Heart Disease.

Atrial fibrillation (AF) appears in the presence or absence of structural heart disease. The majority of foci causing AF are located near the ostia of pulmonary veins (PVs), where cardiomyocytes and vascular smooth muscle cells interdigitate. Connexins (Cx) form gap junction channels and participate in action potential propagation. Genetic variants in genes encoding Cx40 and Cx37 affect their expression or function and may contribute to PV arrhythmogenicity. DNA was obtained from 196 patients with drug-resistant, symptomatic AF with and without structural heart disease, who were referred for percutaneous catheter ablation. Eighty-nine controls were matched for age, gender, hypertension, and BMI. Genotyping of the Cx40 −44G > A, Cx40 +71A > G, Cx40 −26A > G, and Cx37 1019C > T polymorphisms was performed. The promoter A Cx40 polymorphisms (−44G > A and +71A > G) showed no association with non-structural or structural AF. Distribution of the Cx40 promoter B polymorphism (−26A > G) was different in structural AF when compared to controls (p = 0.03). There was no significant difference with non-structural AF (p = 0.50). The distribution of the Cx37 1019C > T polymorphism was different in non-structural AF (p = 0.03) but not in structural AF (p = 0.08) when compared to controls. Our study describes for the first time an association of drug-resistant non-structural heart disease AF with the Cx37 1019C > T gene polymorphism. We also confirmed the association of the Cx40 − 26G > A polymorphism in patients with AF and structural disease.

A Missense Variant in PLEC Increases Risk of Atrial Fibrillation

BackgroundGenome-wide association studies (GWAS) have yielded variants at >30 loci that associate with atrial fibrillation (AF), including rare coding mutations in the sarcomere genes MYH6 and MYL4. ObjectivesThe aim of this study was to search for novel AF associations and in doing so gain insights into the mechanisms whereby variants affect AF risk, using electrocardiogram (ECG) measurements. MethodsThe authors performed a GWAS of 14,255 AF cases and 374,939 controls, using whole-genome sequence data from the Icelandic population, and tested novel signals in 2,002 non-Icelandic cases and 12,324 controls. They then tested the AF variants for effect on cardiac electrical function by using measurements in 289,297 ECGs from 62,974 individuals. ResultsThe authors discovered 2 novel AF variants, the intergenic variant rs72700114, between the genes LINC01142 and METTL11B (risk allele frequency = 8.1%; odds ratio [OR]: 1.26; p = 3.1 × 10−18), and the missense variant p.Gly4098Ser in PLEC (frequency = 1.2%; OR: 1.55; p = 8.0 × 10−10), encoding plectin, a cytoskeletal cross-linking protein that contributes to integrity of cardiac tissue. The authors also confirmed 29 reported variants. p.Gly4098Ser in PLEC significantly affects various ECG measurements in the absence of AF. Other AF variants have diverse effects on the conduction system, ranging from none to extensive. ConclusionsThe discovery of a missense variant in PLEC affecting AF combined with recent discoveries of variants in the sarcomere genes MYH6 and MYL4 points to an important role of myocardial structure in the pathogenesis of the disease. The diverse associations between AF variants and ECG measurements suggest fundamentally different categories of mechanisms contributing to the development of AF.

The role of common genetic variants in atrial fibrillation

This review focuses on the genetic basis of atrial fibrillation (AF) and the role of variants in the susceptibility of developing the disease. AF is the most common cardiac arrhythmia affecting 1–2% of the general population. Studies in the last decade have demonstrated that AF, and in particular lone AF, has a substantial genetic component. A number of genome-wide association studies (GWAS) have indicated that common genetic variants, more precisely the so called single-nucleotide polymorphisms (SNPs) are associated with AF. Presently more than 10 genomic regions have been identified using this approach. Highly penetrant variants in lone AF have also been described in a number of cases. Furthermore, familial AF, although rare, have been recognized for many years.Variants associated with AF have been identified in more than 40 genes, including cardiac gap junction proteins, ion channels and beta subunits. The evidence for some of these findings is not as strong as the evidence for the common variants. All in all, it is a complex picture, as both gain- and loss of function variants have been identified in a number of the genes. This review will focus on the common variants associated with AF.The pathophysiological mechanisms responsible for AF are still far from completely understood, and it is assumed that this arrhythmia represents a complex interplay of genetic predispositions, arrhythmogenic contributors such as electrolytes and inflammatory stimuli as well as contributions from concomitant cardiac and non-cardiac diseases.

Functional Characterization of Rare Variants Implicated in Susceptibility to Lone Atrial Fibrillation.

Few rare variants in atrial fibrillation (AF)-associated genes have been functionally characterized to identify a causal relationship between these variants and development of AF. We here sought to determine the clinical effect of rare variants in AF-associated genes in patients with lone AF and characterized these variants electrophysiologically and bioinformatically. We screened all coding regions in 12 AF-associated genes in 90 patients with lone AF, with an onset of 47±11 years (66 men; mean age, 56±13 years) by high-resolution melting curve analysis and DNA sequencing. The potassium and sodium currents were analyzed using whole-cell patch clamping. In addition to using 4 individual in silico prediction tools, we extended those predictions to an integrated tool (Combined Annotation Dependent Depletion). We identified 7 rare variants in KCNA5, KCNQ1, KCNH2, SCN5A, and SCN1B genes in 8 patients: 2 of 8 probands had a family history of AF. Electrophysiological studies revealed that 2 variants showed a loss-of-function, and 4 variants showed a gain-of-function. Five of 6 variants with electrophysiological abnormalities were predicted as pathogenic by Combined Annotation Dependent Depletion scores. In our cohort of patients with lone AF, 7 rare variants in cardiac ion channels were identified in 8 probands. A combination of electrophysiological studies and in silico predictions showed that these variants could contribute to the development of lone AF, although further in vivo study is necessary to confirm these results. More than half of AF-associated rare variants showed gain-of-function behavior, which may be targeted using genotype-specific pharmacological therapy.

Editorial Genomics of Atrial Fibrillation and Heart Failure.

Atrial fibrillation (AF), the most common types of arrhythmia in the clinic, is an increasing health burden in developing and develped countries as well. The prevalence of AF increases with age, increasing from 1% in youth to nearly 10% in those age over 80. In the United States (US), 3 million people are affected by AF and in China, 10 million AF patients exists. Interestingly, heart failure (HF) is among the serious complications of AF, making it contributes to public health burden worldwide. Recent insights into the genomics causes of cardiovascular diseases highlighted the importance of single-gene defects and common variants in AF and HF. Besides that, microRNAs (miRNAs) dysregulation has also been implicated in the etiology and pathogenesis of AF and HF. In this issue, a group of scientists provide their insights about genomics of AF and HF, pointing out that restoration of genes and/or miRNAs expression to normal level may have therapeutic potential for AF and HF. Palatinus et al. summarized the mutations and common variants for AF while Shen et al. summarized common variants for HF risk and outcome. Both groups discussed these genetic information for the clinic therapy. Hoogen et al. discussed the current knowledge on dysfunction of miRNAs in HF caused by chronic myocarditis, which also provide potential interventions based on miRNAs in the future. Lv et al. overviewed genes and microRNAs responsible for exercise-induced physiological hypertrophy and suggested that manipulation of these critical genes and microRNAs may offer exciting avenues for the treatment of HF. The collection of articles published in this thematic issue provide the recent progress about the genomic basis for AF and HF. Advances in understanding the genomics of AF and HF will inspaire the interest in facilitating the development of novel genomic based therapies.

The M235T polymorphism in the angiotensinogen gene and atrial fibrillation: A meta-analysis.

The M235T polymorphism in the angiotensinogen gene has been reported to be associated with the development of atrial fibrillation (AF).However, results from observational studies are conflicting. PubMed, google scholar and China National Knowledge Infrastructure database(2000.1-2013.4) were searched for eligible articles; four separate studies with 2580 subjects on the relationship between M235T polymorphism and AF were analyzed by meta-analysis. The associations between M235T polymorphism and AF risk were estimated by pooled odds ratio (OR) and 95% confidence interval (CI) using a fixed or random-effects model. There was a significant association between M235T polymorphism and AF. The pooled OR for the recessive model in the total population was 2.17 (95% CI: 1.39-3.38, I(2)=0%). In a subgroup analysis by nationality, the pooled OR for TT vs. MM genotype was 0.55 (95% CI: 0.32-0.95, I(2)=0%) and the pooled OR for the recessive model was 1.86 (95% CI: 1.08-3.20, I(2)=0%) in Asians. The current meta-analysis suggested that the M235T polymorphism in the angiotensinogen gene might be related to the increased risk of AF in Asians. Conclusive evidence on the effects of the variants in AF should be addressed in further studies.

Whole-exome sequencing in familial atrial fibrillation.

Positional cloning and candidate gene approaches have shown that atrial fibrillation (AF) is a complex disease with familial aggregation. Here, we employed whole-exome sequencing (WES) in AF kindreds to identify variants associated with familial AF. WES was performed on 18 individuals in six modestly sized familial AF kindreds. After filtering very rare variants by multiple metrics, we identified 39 very rare and potentially pathogenic variants [minor allele frequency (MAF) ≤0.04%] in genes not previously associated with AF. Despite stringent filtering >1 very rare variants in the 5/6 of the kindreds were identified, whereas no plausible variants contributing to familial AF were found in 1/6 of the kindreds. Two candidate AF variants in the calcium channel subunit genes (CACNB2 and CACNA2D4) were identified in two separate families using expression data and predicted function. By coupling family data with exome sequencing, we identified multiple very rare potentially pathogenic variants in five of six families, suggestive of a complex disease mechanism, whereas none were identified in the remaining AF pedigree. This study highlights some important limitations and challenges associated with performing WES in AF including the importance of having large well-curated multi-generational pedigrees, the issue of potential AF misclassification, and limitations of WES technology when applied to a complex disease.

Common variants for atrial fibrillation: results from genome-wide association studies

Atrial fibrillation (AF) affects more than 5 million people worldwide; however, none of the anti-arrhythmic drugs available now are entirely optimal in terms of efficacy and safety. A better understanding of the molecular mechanism of AF will facilitate the process of finding new strategies to prevent AF. As the non-familial AF is the major form of AF, identifying common variants for AF in these populations by genome-wide association studies will definitely accelerate this process. This review summarizes the recently identified common AF variants on 4q25, 16q22, and 1q21 and discusses their implications for the clinic.