title: The identification of loci for polydactyly in chickens using a genome-wide association study.
abstract: Polydactyly is a commonly observed limb malformation in humans and other vertebrates. The Beijing-You chicken expressing the polydactyly phenotype provides an opportunity to investigate the potential cause for polydactyly. Here we extensively exploited genetic determinants of the chicken polydactyly in a genome wide association study using over 580,000 SNPs characterized in a Beijing-You × Lohmann F1 cross, consisting of 79 animals. A total of 10 loci clustered on the short arm of chromosome 2 were identified to be significantly associated with the trait. Among the 10 significant SNPs, 7 were located in a linkage disequilibrium block of 1737kb. The strongest association signal (rs317674023, P=5.48×10(-8)) residing nearby Bone Morphogenetic Protein Receptor-Associated Molecule 1 (BRAM1) was identified in the genomic region. Our results provide insights to the genetic basis underlying chicken polydactyly and may facilitate studies of the limb malformation in humans and other species.
authors.affiliation: College of Animal Science and Technology, Beijing University of Agriculture, Beijing 100026, China.
authors.forename: Xihui
authors.initials: X
authors.lastname: Sheng
authors.affiliation: Beijing Municipal General Station of Animal Science, Beijing 100001, China.
authors.forename: Yu
authors.initials: Y
authors.lastname: Chen
authors.affiliation: Beijing Municipal General Station of Animal Science, Beijing 100001, China.
authors.forename: Yaxiong
authors.initials: Y
authors.lastname: Jia
authors.affiliation: College of Animal Science and Technology, Beijing University of Agriculture, Beijing 100026, China.
authors.forename: Xiaolong
authors.initials: X
authors.lastname: Qi
authors.affiliation: College of Animal Science and Technology, Beijing University of Agriculture, Beijing 100026, China.
authors.forename: Yun
authors.initials: Y
authors.lastname: Feng
authors.affiliation: College of Animal Science and Technology, Beijing University of Agriculture, Beijing 100026, China.
authors.forename: Zhen
authors.initials: Z
authors.lastname: Huang
authors.affiliation: College of Animal Science and Technology, Beijing University of Agriculture, Beijing 100026, China. Electronic address: y63guo@163.com.
authors.forename: Yong
authors.initials: Y
authors.lastname: Guo
mesh_terms: D000818:Animals; D030161:Avian Proteins / Q000235:genetics*; D002645:Chickens / Q000235:genetics*; D005260:Female; D056426:Genetic Loci; D055106:Genome-Wide Association Study; D015810:Linkage Disequilibrium; D008297:Male; D017689:Polydactyly / Q000235:genetics*; D020641:Polymorphism, Single Nucleotide; D040641:Quantitative Trait Loci
chemical_list: D030161:Avian Proteins
keywords: Chicken; GWAS; Limb malformation; Polydactyly