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Rare copy number variants implicated in posterior urethral valves
Author(s) -
Boghossian Nansi S.,
Sicko Robert J.,
Kay Denise M.,
Rigler Shan L.,
Caggana Michele,
Tsai Michael Y.,
Yeung Edwina H.,
Pankratz Nathan,
Cole Benjamin R.,
Druschel Charlotte M.,
Romitti Paul A.,
Browne Marilyn L.,
Fan Ruzong,
Liu Aiyi,
Brody Lawrence C.,
Mills James L.
Publication year - 2016
Publication title -
american journal of medical genetics part a
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.064
H-Index - 112
eISSN - 1552-4833
pISSN - 1552-4825
DOI - 10.1002/ajmg.a.37493
Subject(s) - copy number variation , gene duplication , biology , genetics , chromosome , population , phenotype , gene , medicine , genome , environmental health
The cause of posterior urethral valves (PUV) is unknown, but genetic factors are suspected given their familial occurrence. We examined cases of isolated PUV to identify novel copy number variants (CNVs). We identified 56 cases of isolated PUV from all live‐births in New York State (1998–2005). Samples were genotyped using Illumina HumanOmni2.5 microarrays. Autosomal and sex‐linked CNVs were identified using PennCNV and cnvPartition software. CNVs were prioritized for follow‐up if they were absent from in‐house controls, contained ≥10 consecutive probes, were ≥20 Kb in size, had ≤20% overlap with variants detected in other birth defect phenotypes screened in our lab, and were rare in population reference controls. We identified 47 rare candidate PUV‐associated CNVs in 32 cases; one case had a 3.9 Mb deletion encompassing BMP7 . Mutations in BMP7 have been associated with severe anomalies in the mouse urethra. Other interesting CNVs, each detected in a single PUV case included: a deletion of PIK3R3 and TSPAN1 , duplication/triplication in FGF12 , duplication of FAT1 —a gene essential for normal growth and development, a large deletion (>2 Mb) on chromosome 17q that involves TBX2 and TBX4 , and large duplications (>1 Mb) on chromosomes 3q and 6q. Our finding of previously unreported novel CNVs in PUV suggests that genetic factors may play a larger role than previously understood. Our data show a potential role of CNVs in up to 57% of cases examined. Investigation of genes in these CNVs may provide further insights into genetic variants that contribute to PUV. © 2015 Wiley Periodicals, Inc.