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Missense Variants in Plakophilin-2 in Arrhythmogenic Right Ventricular Cardiomyopathy Patients – Disease-Causing or Innocent Bystanders?Christensen A.H.a, d · Benn M.b, d · Tybjærg-Hansen A.c · Haunso S.a, b, d, e · Svendsen J.H.a, d, e
aDepartment of Cardiology, bThe Laboratory for Molecular Cardiology, and cDepartment of Clinical Biochemistry, Rigshospitalet, Copenhagen University Hospital, dThe Danish National Research Foundation Centre for Cardiac Arrhythmia, and eDepartment of Surgery and Medicine, Faculty of Health Sciences, University of Copenhagen, Copenhagen, Denmark Corresponding Author
Jesper Hastrup Svendsen, MD, DMSc
Department of Cardiology, Section 2013, Rigshospitalet
DK–2100 Copenhagen (Denmark)
Tel. +45 3545 2817, Fax +45 3538 3186, E-Mail email@example.com
Objectives: Mutations in genes encoding desmosomal proteins have been linked to arrhythmogenic right ventricular cardiomyopathy/dysplasia (ARVC/D). We hypothesized that a Scandinavian ARVC/D population would have a different spectrum of plakophilin-2 (PKP2) mutations and that some of the reported missense mutations may not be pathogenic. Methods: We screened 53 unrelated patients fulfilling Task Force criteria for ARVC/D for mutations in PKP2 by direct sequencing. Results: Seven different mutations were identified: two insertion/deletions (E329fsX352, P401fsX406), 1 splice site (2146–2A>T), 1 non-sense (R79X) and 4 missense mutations (Q62K in 2 patients, G489R, G673V) of undeterminable pathogeneity. None of these mutations was present in 650 controls. Five of the mutations were novel. Seven patients carried reported missense mutations (D26N, S140F, V587I); however, these mutations were identified in our healthy controls, although at a lower frequency. Evaluation of all reported missense mutations in PKP2 showed unclear pathogeneity of several reported mutations. Conclusions: Fifteen percent of Danish ARVC/D patients carried PKP2 mutations. Our finding of reported disease-causing mutations at a low frequency among healthy controls suggests that these variants are disease modifying but not directly disease causing. We recommend conservative interpretation of missense variants in PKP2, functional characterization and large-scale sequencing to clarify normal variation in the gene.
© 2009 S. Karger AG, Basel
Arrhythmogenic right ventricular cardiomyopathy/dysplasia (ARVC/D) is an inherited cardiomyopathy characterized by predominantly right ventricular involvement. Clinical presentation is mainly due to ventricular arrhythmias and symptoms may include palpitations, dizziness, syncope and sudden cardiac death. Pathoanatomical findings consist of atrophy of the cardiac myocytes and fibrofatty infiltrations. The disease is progressive, and left ventricular involvement may occur at various stages . Recommended treatment for prevention of sudden cardiac death is an implantable cardioverter-defibrillator (ICD).
The clinical diagnosis is based on a set of Task Force criteria  including functional and anatomical characteristics of the right ventricle, electrical abnormalities, and family history. The diagnosis is challenging and subjective due to the lack of a confirmatory test.
Several genes encoding desmosomal proteins have been associated with ARVC/D: plakoglobin (JUP) [3,4], desmoplakin (DSP) [5,6], plakophilin-2 (PKP2)[7,8,9,10,11], desmoglein-2 (DSG2) and desmocollin-2 (DSC2). Of nondesmosomal genes, mutations in the cardiac ryanodine receptor (RYR2) and the regulatory elements of transforming growth factor β-3 (TGFβ3) have been suggested as rare causes of ARVC/D. Recently, a gene of unknown function, TMEM43, has been shown to cause a variant form of ARVC/D with complete penetrance . Except for JUP, the primary mode of inheritance is autosomal dominant with variable penetrance, but recessive forms have also been described for DSP, PKP2 and DSC2.
The discovery of a high proportion of ARVC/D patients with mutations in desmosomal genes introduces genetic testing as an important tool assisting the clinician. In the early phases of the disease, the Task Force criteria lack sensitivity, and benign causes of right-sided ventricular tachycardia are the main differential diagnoses. Often, considerations about ICD implantation are relevant with risk of stigmatization, device complications and necessity for regular device replacements. In this context, genetic testing may be an invaluable aid with a positive molecular genetic finding effectively differentiating ARVC/D from other causes of right-sided ventricular tachycardia. In the handling of family members, clinical evaluation is often hampered by incomplete and age-dependent penetrance and variable phenotype. Genetic testing of relatives to mutation carriers enables the clinician to provide reassurance and exclude noncarriers from lifelong clinical follow-up. As promising as genetic testing is as a supplement in patient and family handling, the need for definitive pathogeneity of the identified mutations is crucial for correct treatment and follow-up.
Variable frequencies of PKP2 and differences in the spectrum of mutations have been reported in different populations. As a Scandinavian population has never been screened, we found it of interest to screen a Danish ARVC/D population and hypothesized that Danes would have a different spectrum of PKP2 mutations. We also hypothesized that some of the missense mutations reported as disease causing were benign and wished to screen a large number of healthy controls for all found mutations.
The patient population consisted of 53 unrelated white patients (31 men) fulfilling the Task Force criteria for ARVC/D. Patients were identified at Rigshospitalet, Copenhagen University Hospital, Denmark, which is a tertiary referral center. The population consisted of all identified unrelated patients at the center, except 4 patients who declined genetic testing. A digital ECG, blood sample for genetic analysis, personal medical and family history were obtained from all patients. Results of previously performed diagnostic testing including 2-D echocardiogram, Holter monitoring, stress ECG, signal-averaged ECG (n = 36), magnetic resonance imaging (n = 26), right ventriculography (n = 50) and endomyocardial biopsy (n = 48) were registered. Ten patients with some ARVC/D characteristics but not fulfilling Task Force criteria were also screened, but since no mutations were found in these patients, they were omitted from further analysis. The study was approved by the local ethics committee (KF01-152/04), followed the Helsinki Declaration II, and all participants gave written informed consent prior to inclusion in the study.
DNA was extracted from peripheral blood using standard techniques. Polymerase chain reaction (PCR) amplification was performed of all PKP2 transcript variant 2b (NM_004572.3) exons and flanking intron sequences. Primers and PCR conditions are available on request. Bidirectional sequencing was performed using the dideoxy chain-termination method. Variants with a frequency of less or above 1% were defined as a mutation or a polymorphism, respectively. Protein sequence alignments were done as multisequence alignment with ClustalW2 (EMBL-EBI) using the following reference sequences: Homo sapiens (ENSP00000070846), Pan troglodytes (ENSPTRP00000050160), Macaca mulatta (ENSMMUP00000000801), Bos taurus (ENSBTAP00000003435), Canis familiaris (ENSCAFP00000015415), Mus musculus (ENSMUSP00000036890) and Gallus gallus (ENSGALP00000021029). Potential functional effect of all novel or reported missense mutations in PKP2 were evaluated by in silico predictions using three different algorithms: Polymorphism Phenotyping (PolyPhen) , PANTHER  and Sorting Intolerant from Tolerant (SIFT)  algorithms. All three algorithms use multisequence alignment and scoring of the physical properties of the involved amino acid in their predictions. Prediction of alternative splice sites was done using the Alternative Splice Site Predictor . All predictions were done with standard parameters and cutoff values.
For all novel or missense mutations, 650 healthy controls (1,300 alleles) were genotyped using Taqman assays (Applied Biosystems, Calif., USA) except for the insertion, deletion and 1465G>A mutation where controls were screened using a LightScanner high-resolution melting curve analysis system (Idaho Technology, Utah, USA). The control population consisted of anonymous, self-reported healthy individuals from the general population. Forty-seven percent of the controls were men. Positive controls were sequenced for confirmation.
Comparison of clinical features between patients with and without a PKP2 mutation and comparison of the incidence of the D26N, S140F and V587I mutations between ARVC/D patients and healthy controls were done with Fisher’s exact two-tailed probability test. A p value of less than 0.05 was considered significant.
Clinical characterization of the study population is summarized in table 1. None of the patients had ischemic heart disease, significant valvular heart disease, or diabetes. Six patients were treated for hypertension. Ten patients had reduced left ventricular function (ejection fraction below 55%) but only 1 had severe impairment with an ejection fraction of 25%.
In the 53 screened patients, we identified 7 different heterozygous mutations in 8 patients. None of these mutations were present in the controls. Five of the mutations were novel. Of the reported mutations, 4 were missense mutations, 1 a non-sense, 2 insertion/deletions, and 1 was a splice site mutation. Details regarding the identified mutations are summarized in table 2.
The E329fsX352 and P401fsX406 mutations both cause a frameshift that introduces a premature stop codon and terminates translation of a substantial part of the protein. The R79X mutation terminates translation in exon 2 and the product of this mutant allele is missing all 10 armadillo repeats. The 2146–2A>T splice site mutation is predicted to abolish the highly conserved splice acceptor site of intron 10 and introduces a cryptic splice acceptor site further downstream.
Four patients carried 3 different missense mutations. Two unrelated patients had the Q62K mutation and 1 had the G673V mutation. Both mutations affect highly conserved amino acids (table 3) but without a substantial change in polarity of the involved amino acids. One of the Q62K carriers had a clinically affected brother who did not carry the mutation. The patient with the G673V mutation also had the V587I mutation (see below) and S70I polymorphism. One patient carried the G489R mutation located in exon 6, which causes a change in amino acid polarity, and is located in the unconserved 44 residue insertion unique to plakophilin-2 isoform 2b.
Seven patients carried missense mutations previously reported as disease causing (table 4); however, these mutations were present in our control population (n = 650). The previously reported D26N and V587I mutations affect highly conserved regions (table 3) but without a substantial change in polarity of the involved amino acid. The S140F mutation causes a severe change in the properties of the amino acid involved, but the region is not highly conserved, and phenylalanine exists in another species in the orthologous alignment. Two families carrying the S140F mutation did not show a genotype-phenotype correlation. For the other families, no family members were available for genetic testing. One of the patients carrying the D26N mutation also had the T338A mutation (see below).
The following novel mutation was present in both patients and controls: T338A (1012A>G; 1 patient, 1 control) and the following previously reported polymorphisms were found: E58D (174G>T; 1 patient), S70I (209G>T; 3 patients), L366P (1097T>C; 9 heterozygous, 5 homozygous patients) and I531S (1592T>C; 1 patient).
The predicted effects of all reported missense mutations using 3 different algorithms are summarized in table 3. Of the 14 analyzed mutations, the PolyPhen algorithm predicted 4 to be benign, 4 to be possibly damaging and 6 to be probably damaging. The PANTHER algorithm did not produce valid predictions for the first 5 listed mutations, but of the remaining 9 mutations 1 was predicted to be benign, 7 to be damaging and 1 of unknown function. The SIFT algorithm predicted 3 to be benign and 11 to be damaging.
Six of the mutation carriers were referred to our center for further evaluation due to symptomatic ventricular tachycardia. The remaining 2 patients were referred for evaluation due to ARVC/D-related deaths in the families several years prior to referral. The clinical features of the mutation carriers are summarized in table 5. Comparison of clinical data between the PKP2-positive and the PKP2-negative group showed no significant difference with regard to age at symptom onset (34 vs. 36 years), right ventricular involvement, depolarization or repolarization abnormalities, documented ventricular arrhythmia or positive family history. None of the 8 mutation carriers had reduced left ventricular function compared to 10 (0 vs. 23%, p = 0.32) of the PKP2-negative patients. Seven of the 8 mutation carriers had an ICD implanted, which was not significantly different from the noncarriers.
Our study showed that 15% of Danish ARVC/D patients had mutations in PKP2 consisting of 4 truncating and 4 missense mutations. The pathogeneity of our reported missense mutations is, however, unclear. The geographical differences in PKP2 mutation frequencies may be caused by differences in ethnicity, patient selection, founder mutations, and limited sample sizes.
The R79X, E329fsX352, and P401fsX406 mutations identified in our study population all introduce a premature stop codon. The transcripts of these 3 mutant alleles are most likely degraded by non-sense-mediated mRNA decay . If translated, the mutant transcripts would cause a truncated protein. Together with the 2146–2A>T splice site mutation, all 4 mutations result in functional haploinsufficiency.
Three different missense mutations were identified in 4 patients. A Q62K mutation occurred in a patient from a family with a high incidence of ARVC/D; however, the patient’s brother, who is also clinically affected, does not carry the mutation. The G489R mutation located in exon 6 affects an Alu repeat  unique to the PKP2 isoform 2b. The function of this Alu repeat located between armadillo repeat 3 and 4 is unknown, and the significance of alternative transcripts in other species is not well characterized. No previous mutations have been reported in exon 6. The G673V mutation introduces a hydrophobic amino acid of a different size but with unchanged polarity. In conclusion, the pathogeneity of these 3 missense mutations (Q62K, G489R, G673V) cannot be established with certainty due to lack of change in amino acid polarity or location in a nonconserved region.
Our finding of several reported disease-causing missense mutations (D26N, S140F, V587I) in healthy controls raises questions about the pathogeneity of these mutations (D26N was labeled as an unclassified variant by the Dutch group ). In conjunction with orthologous alignment, properties of the involved amino acid and lack of genotype-phenotype correlation (S140F), it is not likely that these mutations are directly disease causing. The concern about the disease-causing effect of missense mutations in PKP2 can be extended to several other reported missense mutations. Although not definitive evidence, in silico predictions of all reported missense mutations in PKP2 showed that several of the mutations were classified as possibly, rather than probably, damaging to the protein. Some inconsistencies existed but none of the 3 mutations present in our controls (D26N, S140F, V587I) was uniformly predicted to be detrimental.
The majority of the reported mutations in PKP2 are non-sense and frameshift mutations with haploinsufficiency as the suggested molecular disease mechanism. The overrepresentation (table 4) of the D26N, S140F and V587I mutations in ARVC/D patients compared with controls may reflect that these mutations are susceptibility mutations or have a disease-modifying role. The concept of increased susceptibility associated with certain mutations is consistent with a recent report showing the V56M variant in DSG2 (suggested as disease causing in ARVC/D ) as a predisposing factor for dilated cardiomyopathy, but also present in healthy controls . Although speculative, the ARVC/D phenotype may be a result of a missense PKP2 mutation in conjunction with other genetic, epigenetic or environmental factors (e.g. myocarditis or exercise). Two patients carried two mutations each (V587I/G673V and D26N/T338A, respectively). These findings suggest that multiple mutations may have a synergistic negative effect on protein function.
The classification of a genetic variant as disease causing or benign is a known challenge in human genetics. Evaluation of amino acid properties, evolutionary conservation, cosegregation analysis in families, absence in a control population, in silico predictions and functional characterization are tools in determining the pathogeneity. Expression systems for desmosomal mutations are evolving and have been described for DSP and DSG2. These systems are complex and expensive, and due to the high number of private mutations it is currently not feasible that all reported mutations can be tested in such systems.
The aim of this study was to establish the prevalence of PKP2 mutations in a Scandinavian ARVC/D population, and genes coding for other desmosome proteins were not evaluated. Other limitations include selection bias to tertiary center, inability to detect large genomic insertions/deletions, uncertainties in prediction programs and limited cohort size. Due to the anonymous identity of our control population, no systematic clinical evaluation for ARVC/D was possible which would have been optimal. However, we find it highly unlikely that 17 (D26N, S140F and V587I carriers) out of 650 controls have concealed ARVC/D due to the rarity and genetic heterogeneity associated with the disease.
In conclusion, 15% of Danish ARVC/D patients have mutations in PKP2. Our finding of previously reported disease-causing missense mutations in healthy controls raises concerns about the pathogeneity of these mutations and suggests increased susceptibility or a disease-modifying role. We recommend conservative evaluation of missense variants in ARVC/D patients, functional characterization and large-scale sequencing of healthy controls to clarify normal variation in PKP2.
This work was supported by grants from The Danish National Arrhythmia Research Foundation Centre for Cardiac Arrhythmia, Danish Cardiovascular Research Academy, The Research Council at the Heart Centre, Rigshospitalet, The Villadsen Family Foundation, Brødrene Hartmanns Foundation, and The John and Birthe Meyer Foundation.
Jesper Hastrup Svendsen, MD, DMSc
Department of Cardiology, Section 2013, Rigshospitalet
DK–2100 Copenhagen (Denmark)
Tel. +45 3545 2817, Fax +45 3538 3186, E-Mail firstname.lastname@example.org
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