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Open Access Highly Accessed Research article

New population-based exome data question the pathogenicity of some genetic variants previously associated with Marfan syndrome

Ren-Qiang Yang123*, Javad Jabbari12, Xiao-Shu Cheng3, Reza Jabbari12, Jonas B Nielsen12, Bjarke Risgaard12, Xu Chen12, Ahmad Sajadieh4, Stig Haunsø125, Jesper Hastrup Svendsen125, Morten S Olesen125 and Jacob Tfelt-Hansen125

Author Affiliations

1 Laboratory of Molecular Cardiology, Department of Cardiology, the Heart Centre, Copenhagen University Hospital, Rigshospitalet, Copenhagen, Denmark

2 The Danish National Research Foundation Centre for Cardiac Arrhythmia, Copenhagen, Denmark

3 Department of Cardiology, Institute of Cardiovascular Disease, the Heart Centre, the Second Affiliated Hospital, Nanchang University, Nanchang, China

4 Department of Cardiology, Copenhagen University Hospital of Bispebjerg, Bispebjerg, Denmark

5 Department of Medicine and Surgery, Faculty of Health and Medical Science, University of Copenhagen, Copenhagen, Denmark

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BMC Genetics 2014, 15:74  doi:10.1186/1471-2156-15-74

Published: 18 June 2014

Abstract

Background

Marfan syndrome (MFS) is a rare autosomal dominantly inherited connective tissue disorder with an estimated prevalence of 1:5,000. More than 1000 variants have been previously reported to be associated with MFS. However, the disease-causing effect of these variants may be questionable as many of the original studies used low number of controls. To study whether there are possible false-positive variants associated with MFS, four in silico prediction tools (SIFT, Polyphen-2, Grantham score, and conservation across species) were used to predict the pathogenicity of these variant.

Results

Twenty-three out of 891 previously MFS-associated variants were identified in the ESP. These variants were distributed on 100 heterozygote carriers in 6494 screened individuals. This corresponds to a genotype prevalence of 1:65 for MFS. Using a more conservative approach (cutoff value of >2 carriers in the EPS), 10 variants affected a total of 82 individuals. This gives a genotype prevalence of 1:79 (82:6494) in the ESP. A significantly higher frequency of MFS-associated variants not present in the ESP were predicted to be pathogenic with the agreement of ≥3 prediction tools, compared to the variants present in the ESP (p = 3.5 × 10−15).

Conclusions

This study showed a higher genotype prevalence of MFS than expected from the phenotype prevalence in the general population. The high genotype prevalence suggests that these variants are not the monogenic cause of MFS. Therefore, caution should be taken with regard to disease stratification based on these previously reported MFS-associated variants.

Keywords:
Marfan syndrome; Genetic testing; HGMD; The NHLBI GO exome sequencing project; Variant