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Rare and duplications containing in clubfoot.

TitleRare and duplications containing in clubfoot.
Publication TypeJournal Article
Year of Publication2020
AuthorsSadler B, Haller G, Antunes L, Nikolov M, Amarillo I, Coe B, Dobbs MB, Gurnett CA
JournalJ Med Genet
Volume57
Issue12
Pagination851-857
Date Published2020 12
ISSN1468-6244
KeywordsAdolescent, Child, Child, Preschool, Chromosome Duplication, Clubfoot, DNA Copy Number Variations, Gene Duplication, Genetic Predisposition to Disease, Humans, Infant, Microarray Analysis, Middle Aged, Paired Box Transcription Factors, Pedigree, Pseudoautosomal Regions, Short Stature Homeobox Protein, T-Box Domain Proteins, Whole Exome Sequencing
Abstract

INTRODUCTION: Congenital clubfoot is a common birth defect that affects at least 0.1% of all births. Nearly 25% cases are familial and the remaining are sporadic in inheritance. Copy number variants (CNVs) involving transcriptional regulators of limb development, including and , have previously been shown to cause familial clubfoot, but much of the heritability remains unexplained.

METHODS: Exome sequence data from 816 unrelated clubfoot cases and 2645 in-house controls were analysed using coverage data to identify rare CNVs. The precise size and location of duplications were then determined using high-density Affymetrix Cytoscan chromosomal microarray (CMA). Segregation in families and status were determined using qantitative PCR.

RESULTS: Chromosome Xp22.33 duplications involving were identified in 1.1% of cases (9/816) compared with 0.07% of in-house controls (2/2645) (p=7.98×10, OR=14.57) and 0.27% (38/13592) of Atherosclerosis Risk in Communities/the Wellcome Trust Case Control Consortium 2 controls (p=0.001, OR=3.97). CMA validation confirmed an overlapping 180.28 kb duplicated region that included exons as well as downstream non-coding regions. In four of six sporadic cases where DNA was available for unaffected parents, the duplication was . The probability of four mutations in by chance in a cohort of 450 sporadic clubfoot cases is 5.4×10.

CONCLUSIONS: Microduplications of the pseudoautosomal chromosome Xp22.33 region (PAR1) containing and downstream enhancer elements occur in ~1% of patients with clubfoot. and regulatory regions have previously been implicated in skeletal dysplasia as well as idiopathic short stature, but have not yet been reported in clubfoot. duplications likely contribute to clubfoot pathogenesis by altering early limb development.

DOI10.1136/jmedgenet-2020-106842
Alternate JournalJ Med Genet
PubMed ID32518174
PubMed Central IDPMC7688552
Grant ListP01 HD084387 / HD / NICHD NIH HHS / United States
S10 OD018091 / OD / NIH HHS / United States
UL1 RR024992 / RR / NCRR NIH HHS / United States
S10 RR022984 / RR / NCRR NIH HHS / United States
U54 HD087011 / HD / NICHD NIH HHS / United States
P30 CA091842 / CA / NCI NIH HHS / United States
P30 AR057235 / AR / NIAMS NIH HHS / United States
P50 HD103525 / HD / NICHD NIH HHS / United States
UL1 TR002345 / TR / NCATS NIH HHS / United States
/ WT_ / Wellcome Trust / United Kingdom
R01 AR067715 / AR / NIAMS NIH HHS / United States