De novo deletions and duplications of 17q25.3 cause susceptibility to cardiovascular malformations

F. J. Probst, R. A. James, L. C. Burrage, J. A. Rosenfeld, T. P. Bohan, C. H Ward Melver, P. Magoulas, E. Austin, A. I A Franklin, M. Azamian, F. Xia, A. Patel, W. Bi, C. Bacino, J. W. Belmont, Stephanie Ware, C. Shaw, S. W. Cheung, S. R. Lalani

Research output: Contribution to journalArticle

3 Citations (Scopus)

Abstract

Background: Genomic disorders resulting from deletion or duplication of genomic segments are known to be an important cause of cardiovascular malformations (CVMs). In our previous study, we identified a unique individual with a de novo 17q25.3 deletion from a study of 714 individuals with CVM. Methods: To understand the contribution of this locus to cardiac malformations, we reviewed the data on 60,000 samples submitted for array comparative genomic hybridization (CGH) studies to Medical Genetics Laboratories at Baylor College of Medicine, and ascertained seven individuals with segmental aneusomy of 17q25. We validated our findings by studying another individual with a de novo submicroscopic deletion of this region from Cytogenetics Laboratory at Cincinnati Children's Hospital. Using bioinformatic analyses including protein-protein interaction network, human tissue expression patterns, haploinsufficiency scores, and other annotation systems, including a training set of 251 genes known to be linked to human cardiac disease, we constructed a pathogenicity score for cardiac phenotype for each of the 57 genes within the terminal 2.0 Mb of 17q25.3. Results: We found relatively high penetrance of cardiovascular defects (~60 %) with five deletions and three duplications, observed in eight unrelated individuals. Distinct cardiac phenotypes were present in four of these subjects with non-recurrent de novo deletions (range 0.08 Mb-1.4 Mb) in the subtelomeric region of 17q25.3. These included coarctation of the aorta (CoA), total anomalous pulmonary venous return (TAPVR), ventricular septal defect (VSD) and atrial septal defect (ASD). Amongst the three individuals with variable size duplications of this region, one had patent ductus arteriosus (PDA) at 8 months of age. Conclusion: The distinct cardiac lesions observed in the affected patients and the bioinformatics analyses suggest that multiple genes may be plausible drivers of the cardiac phenotype within this gene-rich critical interval of 17q25.3.

Original languageEnglish (US)
Article number75
JournalOrphanet Journal of Rare Diseases
Volume10
Issue number1
DOIs
StatePublished - Jun 14 2015

Fingerprint

Computational Biology
Phenotype
Genes
Scimitar Syndrome
Protein Interaction Maps
Haploinsufficiency
Patent Ductus Arteriosus
Aortic Coarctation
Comparative Genomic Hybridization
Atrial Heart Septal Defects
Penetrance
Ventricular Heart Septal Defects
Medical Genetics
Cytogenetics
Virulence
Heart Diseases
Medicine
Proteins

Keywords

  • 17q25 Deletion
  • Congenital heart defects
  • Copy number variations
  • Intellectual disability

ASJC Scopus subject areas

  • Medicine(all)
  • Genetics(clinical)
  • Pharmacology (medical)

Cite this

Probst, F. J., James, R. A., Burrage, L. C., Rosenfeld, J. A., Bohan, T. P., Melver, C. H. W., ... Lalani, S. R. (2015). De novo deletions and duplications of 17q25.3 cause susceptibility to cardiovascular malformations. Orphanet Journal of Rare Diseases, 10(1), [75]. https://doi.org/10.1186/s13023-015-0291-0

De novo deletions and duplications of 17q25.3 cause susceptibility to cardiovascular malformations. / Probst, F. J.; James, R. A.; Burrage, L. C.; Rosenfeld, J. A.; Bohan, T. P.; Melver, C. H Ward; Magoulas, P.; Austin, E.; Franklin, A. I A; Azamian, M.; Xia, F.; Patel, A.; Bi, W.; Bacino, C.; Belmont, J. W.; Ware, Stephanie; Shaw, C.; Cheung, S. W.; Lalani, S. R.

In: Orphanet Journal of Rare Diseases, Vol. 10, No. 1, 75, 14.06.2015.

Research output: Contribution to journalArticle

Probst, FJ, James, RA, Burrage, LC, Rosenfeld, JA, Bohan, TP, Melver, CHW, Magoulas, P, Austin, E, Franklin, AIA, Azamian, M, Xia, F, Patel, A, Bi, W, Bacino, C, Belmont, JW, Ware, S, Shaw, C, Cheung, SW & Lalani, SR 2015, 'De novo deletions and duplications of 17q25.3 cause susceptibility to cardiovascular malformations', Orphanet Journal of Rare Diseases, vol. 10, no. 1, 75. https://doi.org/10.1186/s13023-015-0291-0
Probst, F. J. ; James, R. A. ; Burrage, L. C. ; Rosenfeld, J. A. ; Bohan, T. P. ; Melver, C. H Ward ; Magoulas, P. ; Austin, E. ; Franklin, A. I A ; Azamian, M. ; Xia, F. ; Patel, A. ; Bi, W. ; Bacino, C. ; Belmont, J. W. ; Ware, Stephanie ; Shaw, C. ; Cheung, S. W. ; Lalani, S. R. / De novo deletions and duplications of 17q25.3 cause susceptibility to cardiovascular malformations. In: Orphanet Journal of Rare Diseases. 2015 ; Vol. 10, No. 1.
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AU - Probst, F. J.

AU - James, R. A.

AU - Burrage, L. C.

AU - Rosenfeld, J. A.

AU - Bohan, T. P.

AU - Melver, C. H Ward

AU - Magoulas, P.

AU - Austin, E.

AU - Franklin, A. I A

AU - Azamian, M.

AU - Xia, F.

AU - Patel, A.

AU - Bi, W.

AU - Bacino, C.

AU - Belmont, J. W.

AU - Ware, Stephanie

AU - Shaw, C.

AU - Cheung, S. W.

AU - Lalani, S. R.

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N2 - Background: Genomic disorders resulting from deletion or duplication of genomic segments are known to be an important cause of cardiovascular malformations (CVMs). In our previous study, we identified a unique individual with a de novo 17q25.3 deletion from a study of 714 individuals with CVM. Methods: To understand the contribution of this locus to cardiac malformations, we reviewed the data on 60,000 samples submitted for array comparative genomic hybridization (CGH) studies to Medical Genetics Laboratories at Baylor College of Medicine, and ascertained seven individuals with segmental aneusomy of 17q25. We validated our findings by studying another individual with a de novo submicroscopic deletion of this region from Cytogenetics Laboratory at Cincinnati Children's Hospital. Using bioinformatic analyses including protein-protein interaction network, human tissue expression patterns, haploinsufficiency scores, and other annotation systems, including a training set of 251 genes known to be linked to human cardiac disease, we constructed a pathogenicity score for cardiac phenotype for each of the 57 genes within the terminal 2.0 Mb of 17q25.3. Results: We found relatively high penetrance of cardiovascular defects (~60 %) with five deletions and three duplications, observed in eight unrelated individuals. Distinct cardiac phenotypes were present in four of these subjects with non-recurrent de novo deletions (range 0.08 Mb-1.4 Mb) in the subtelomeric region of 17q25.3. These included coarctation of the aorta (CoA), total anomalous pulmonary venous return (TAPVR), ventricular septal defect (VSD) and atrial septal defect (ASD). Amongst the three individuals with variable size duplications of this region, one had patent ductus arteriosus (PDA) at 8 months of age. Conclusion: The distinct cardiac lesions observed in the affected patients and the bioinformatics analyses suggest that multiple genes may be plausible drivers of the cardiac phenotype within this gene-rich critical interval of 17q25.3.

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