title: Detection of SNPs in the TBC1D1 gene and their association with carcass traits in chicken.
abstract: TBC1D1 plays an important role in numerous fundamental physiological processes including muscle metabolism, regulation of whole body energy homeostasis and lipid metabolism. The objective of the present study was to identify single nucleotide polymorphisms (SNPs) in chicken TBC1D1 using 128 Erlang mountainous chickens and to determine if these SNPs are associated with carcass traits. The approach consisted of sequencing TBC1D1 using a panel of DNA from different individuals, revealing twenty-two SNPs. Among these SNPs, two polymorphisms (g.69307744C>T and g.69307608T>G) of block 1, four polymorphisms (g.69322320C>T, g.69322314G>A, g.69317290A>G and g.69317276T>C) of block 2 and four polymorphisms of block 3 (g.69349746G>A, g.69349736C>G, g.69349727C>T and g.69349694C>T) exhibited a high degree of linkage disequilibrium in all test populations. An association analysis was performed between the twenty-two SNPs and seven performance traits. SNPs g.69307744C>T, g.69340192G>A and g.69355665T>C were demonstrated to have a strong effect on liveweight (BW), carcass weight (CW), semi-eviscerated weight (SEW) and eviscerated weight (EW) and g.69340070C>T polymorphism was related to BW, SEW and BMW in chicken populations. However, for the other SNPs, there were no significant correlations between different genotypes and carcass traits. Meanwhile, haplotype CT-TG of block 1 and combined genotype AG-TT-AC-CT of block 3 were significantly associated with BW, CW, SEW and EW. Overall, our results provide evidence that polymorphisms in TBC1D1 are associated with carcass traits and would be a useful candidate gene in selection programs for improving carcass traits.
authors: Farm Animal Genetic Resource Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu Campus, Chengdu 611130, China.
authors: Yan
authors: Y
authors: Wang
authors: Farm Animal Genetic Resource Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu Campus, Chengdu 611130, China.
authors: Heng-Yong
authors: HY
authors: Xu
authors: Department of Animal and Poultry Sciences, Virginia Polytechnic Institute and State University, Blacksburg, VA 24061, USA.
authors: Elizabeth R
authors: ER
authors: Gilbert
authors: Farm Animal Genetic Resource Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu Campus, Chengdu 611130, China.
authors: Xing
authors: X
authors: Peng
authors: College of Animal Science and Technology, Sichuan Agricultural University, Ya'an, Sichuan 625014, China.
authors: Xiao-Ling
authors: XL
authors: Zhao
authors: Farm Animal Genetic Resource Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu Campus, Chengdu 611130, China.
authors: Yi-Ping
authors: YP
authors: Liu
authors: College of Animal Science and Technology, Sichuan Agricultural University, Ya'an, Sichuan 625014, China. Electronic address: zhuqing5959@163.com.
authors: Qing
authors: Q
authors: Zhu
mesh_terms: D000818:Animals; D002645:Chickens / Q000235:genetics*; D063427:Food Quality; D020690:GTPase-Activating Proteins / Q000235:genetics*; D020641:Polymorphism, Single Nucleotide; D011202:Poultry Products / Q000592:standards*
chemical_list: D020690:GTPase-Activating Proteins
keywords: Carcass traits; Chicken; Haplotype; SNPs; TBC1D1