The identification of loci for polydactyly in chickens using a genome-wide association study

Gene. 2015 Sep 1;568(2):176-80. doi: 10.1016/j.gene.2015.05.049. Epub 2015 May 21.

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.

Keywords: Chicken; GWAS; Limb malformation; Polydactyly.

Publication types

  • Research Support, Non-U.S. Gov't
  • Retracted Publication

MeSH terms

  • Animals
  • Avian Proteins / genetics*
  • Chickens / genetics*
  • Female
  • Genetic Loci
  • Genome-Wide Association Study
  • Linkage Disequilibrium
  • Male
  • Polydactyly / genetics*
  • Polymorphism, Single Nucleotide
  • Quantitative Trait Loci

Substances

  • Avian Proteins