title: Molecular cloning and SNP association analysis of chicken PMCH gene.
abstract: The pre-melanin-concentrating hormone (PMCH) gene is an important gene functionally concerning the regulations of body fat content, feeding behavior and energy balance. In this study, the full-length cDNA of chicken PMCH gene was amplified by SMART RACE method. The single nucleotide polymorphisms (SNPs) in the PMCH gene were screened by comparative sequence analysis. The obtained non-synonymous coding SNPs (ncSNPs) were designed for genotyping firstly. Its effects on growth, carcass characteristics and meat quality traits were investigated employing the F2 resource population of Gushi chicken crossed with Anak broiler by AluI CRS-PCR-RFLP. Our results indicated that the cDNA of chicken PMCH shared 67.25 and 66.47% homology with that of human and bovine PMCH, respectively. The deduced amino acid sequence of chicken PMCH (163 amino acids) were 52.07 and 50.89% identical to those of human and bovine PMCH, respectively. The PMCH protein sequence is predicted to have several functional domains, including pro-MCH, CSP, IL7, XPGI and some low complexity sequence. It has 8 phosphorylation sites and no signal peptide sequence. gga-miR-18a, gga-miR-18b, gga-miR-499 microRNA targeting site was predicted in the 3' untranslated region of chicken PMCH mRNA. In addition, a total of seven SNPs including an ncSNP and a synonymous coding SNP, were identified in the PMCH gene. The ncSNP c.81 A>T was found to be in moderate polymorphic state (polymorphic index=0.365), and the frequencies for genotype AA, AB and BB were 0.3648, 0.4682 and 0.1670, respectively. Significant associations between the locus and shear force of breast and leg were observed. This polymorphic site may serve as a useful target for the marker assisted selection of the growth and meat quality traits in chicken.
authors.affiliation: College of Animal Science and Veterinary Medicine, Henan Agricultural University, Henan Innovative Engineering Research Center of Poultry Germplasm Resource, No. 95 Wenhua Road, Zhengzhou, 450002, People's Republic of China.
authors.forename: Guirong
authors.initials: G
authors.lastname: Sun
authors.forename: Ming
authors.initials: M
authors.lastname: Li
authors.forename: Hong
authors.initials: H
authors.lastname: Li
authors.forename: Yadong
authors.initials: Y
authors.lastname: Tian
authors.forename: Qixin
authors.initials: Q
authors.lastname: Chen
authors.forename: Yichun
authors.initials: Y
authors.lastname: Bai
authors.forename: Xiangtao
authors.initials: X
authors.lastname: Kang
mesh_terms: D000818:Animals; D001483:Base Sequence; D001947:Breeding / Q000379:methods; D002417:Cattle; D002645:Chickens / Q000235:genetics* / Q000254:growth & development; D003001:Cloning, Molecular; D018076:DNA, Complementary / Q000235:genetics; D056726:Genetic Association Studies; D005819:Genetic Markers / Q000235:genetics*; D006801:Humans; D007028:Hypothalamic Hormones / Q000235:genetics*; D008460:Meat / Q000592:standards*; D008543:Melanins / Q000235:genetics*; D008969:Molecular Sequence Data; D010907:Pituitary Hormones / Q000235:genetics*; D012150:Polymorphism, Restriction Fragment Length; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D017422:Sequence Analysis, DNA; D017385:Sequence Homology; D013045:Species Specificity
chemical_list: D018076:DNA, Complementary; D005819:Genetic Markers; D007028:Hypothalamic Hormones; D008543:Melanins; D010907:Pituitary Hormones; C019463:melanin-concentrating hormone