title: Genome-wide association study reveals novel variants for growth and egg traits in Dongxiang blue-shelled and White Leghorn chickens.
abstract: This study was designed to investigate the genetic basis of growth and egg traits in Dongxiang blue-shelled chickens and White Leghorn chickens. In this study, we employed a reduced representation sequencing approach called genotyping by genome reducing and sequencing to detect genome-wide SNPs in 252 Dongxiang blue-shelled chickens and 252 White Leghorn chickens. The Dongxiang blue-shelled chicken breed has many specific traits and is characterized by blue-shelled eggs, black plumage, black skin, black bone and black organs. The White Leghorn chicken is an egg-type breed with high productivity. As multibreed genome-wide association studies (GWASs) can improve precision due to less linkage disequilibrium across breeds, a multibreed GWAS was performed with 156 575 SNPs to identify the associated variants underlying growth and egg traits within the two chicken breeds. The analysis revealed 32 SNPs exhibiting a significant genome-wide association with growth and egg traits. Some of the significant SNPs are located in genes that are known to impact growth and egg traits, but nearly half of the significant SNPs are located in genes with unclear functions in chickens. To our knowledge, this is the first multibreed genome-wide report for the genetics of growth and egg traits in the Dongxiang blue-shelled and White Leghorn chickens.
authors.affiliation: Department of Animal Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240, China.|Institute of Animal Husbandry and Veterinary Research, Shanghai Academy of Agricultural Sciences, Shanghai, 201106, China.
authors.forename: R
authors.initials: R
authors.lastname: Liao
authors.affiliation: Department of Animal Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240, China.|Shanghai Key Laboratory of Veterinary Biotechnology, Shanghai, 200240, China.
authors.forename: X
authors.initials: X
authors.lastname: Zhang
authors.affiliation: Faculty of Life Science and Technology, Kunming University of Science and Technology, Kunming, 650093, Yunnan, China.
authors.forename: Q
authors.initials: Q
authors.lastname: Chen
authors.affiliation: Department of Animal Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240, China.
authors.forename: Z
authors.initials: Z
authors.lastname: Wang
authors.affiliation: Department of Animal Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240, China.|Shanghai Key Laboratory of Veterinary Biotechnology, Shanghai, 200240, China.
authors.forename: Q
authors.initials: Q
authors.lastname: Wang
authors.affiliation: Institute of Animal Husbandry and Veterinary Research, Shanghai Academy of Agricultural Sciences, Shanghai, 201106, China. yangchangsuo@189.cn.
authors.forename: C
authors.initials: C
authors.lastname: Yang
authors.affiliation: Department of Animal Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, 200240, China. panyuchun1963@aliyun.com.|Shanghai Key Laboratory of Veterinary Biotechnology, Shanghai, 200240, China. panyuchun1963@aliyun.com.
authors.forename: Y
authors.initials: Y
authors.lastname: Pan
mesh_terms: D000818:Animals; D001835:Body Weight; D001947:Breeding; D002645:Chickens / Q000235:genetics* / Q000254:growth & development*; D004528:Egg Shell / Q000502:physiology; D056726:Genetic Association Studies; D005838:Genotype; D015810:Linkage Disequilibrium; D010063:Ovum / Q000502:physiology*; D010641:Phenotype; D010858:Pigmentation; D020641:Polymorphism, Single Nucleotide; D017422:Sequence Analysis, DNA
keywords: genetics; multibreed; reduced representation sequencing; single nucleotide polymorphism