title: Phenotype-specific effect of chromosome 1q21.1 rearrangements and GJA5 duplications in 2436 congenital heart disease patients and 6760 controls.
abstract: Recurrent rearrangements of chromosome 1q21.1 that occur via non-allelic homologous recombination have been associated with variable phenotypes exhibiting incomplete penetrance, including congenital heart disease (CHD). However, the gene or genes within the ~1 Mb critical region responsible for each of the associated phenotypes remains unknown. We examined the 1q21.1 locus in 948 patients with tetralogy of Fallot (TOF), 1488 patients with other forms of CHD and 6760 ethnically matched controls using single nucleotide polymorphism genotyping arrays (Illumina 660W and Affymetrix 6.0) and multiplex ligation-dependent probe amplification. We found that duplication of 1q21.1 was more common in cases of TOF than in controls [odds ratio (OR) 30.9, 95% confidence interval (CI) 8.9-107.6); P = 2.2 × 10(-7)], but deletion was not. In contrast, deletion of 1q21.1 was more common in cases of non-TOF CHD than in controls [OR 5.5 (95% CI 1.4-22.0); P = 0.04] while duplication was not. We also detected rare (n = 3) 100-200 kb duplications within the critical region of 1q21.1 in cases of TOF. These small duplications encompassed a single gene in common, GJA5, and were enriched in cases of TOF in comparison to controls [OR = 10.7 (95% CI 1.8-64.3), P = 0.01]. These findings show that duplication and deletion at chromosome 1q21.1 exhibit a degree of phenotypic specificity in CHD, and implicate GJA5 as the gene responsible for the CHD phenotypes observed with copy number imbalances at this locus.
authors.affiliation: Institute of Genetic Medicine, Newcastle University, Newcastle, UK.
authors.forename: Rachel
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authors.lastname: Soemedi
authors.forename: Ana
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authors.lastname: Topf
authors.forename: Ian J
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authors.lastname: Wilson
authors.forename: Rebecca
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authors.lastname: Darlay
authors.forename: Thahira
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authors.lastname: Rahman
authors.forename: Elise
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authors.lastname: Hall
authors.forename: Ni
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authors.lastname: Huang
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authors.lastname: Bentham
authors.forename: Shoumo
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authors.lastname: Bhattacharya
authors.forename: Catherine
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authors.lastname: Cosgrove
authors.forename: J David
authors.initials: JD
authors.lastname: Brook
authors.forename: Javier
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authors.lastname: Granados-Riveron
authors.forename: Kerry
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authors.lastname: Setchfield
authors.forename: Frances
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authors.lastname: Bu'lock
authors.forename: Chris
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authors.lastname: Thornborough
authors.forename: Koenraad
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authors.lastname: Devriendt
authors.forename: Jeroen
authors.initials: J
authors.lastname: Breckpot
authors.forename: Michael
authors.initials: M
authors.lastname: Hofbeck
authors.forename: Mark
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authors.lastname: Lathrop
authors.forename: Anita
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authors.lastname: Rauch
authors.forename: Gillian M
authors.initials: GM
authors.lastname: Blue
authors.forename: David S
authors.initials: DS
authors.lastname: Winlaw
authors.forename: Matthew
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authors.lastname: Hurles
authors.forename: Mauro
authors.initials: M
authors.lastname: Santibanez-Koref
authors.forename: Heather J
authors.initials: HJ
authors.lastname: Cordell
authors.forename: Judith A
authors.initials: JA
authors.lastname: Goodship
authors.forename: Bernard D
authors.initials: BD
authors.lastname: Keavney
mesh_terms: D002872:Chromosome Deletion; D058674:Chromosome Duplication; D002878:Chromosomes, Human, Pair 1; D017630:Connexins / Q000235:genetics*; D020440:Gene Duplication; D006330:Heart Defects, Congenital / Q000235:genetics*; D006801:Humans; D010641:Phenotype; D013771:Tetralogy of Fallot / Q000235:genetics*; D000097003:Gap Junction alpha-5 Protein
chemical_list: D017630:Connexins; D000097003:Gap Junction alpha-5 Protein