title: Haplotype combination of SREBP-1c gene sequence variants is associated with growth traits in cattle.
abstract: The aim of this study was to examine the association of the SREBP-1c polymorphism with growth traits in cattle breeds. Five sequence variants (SVs) were identified within the bovine sterol regulatory element-binding protein-1c gene (SREBP-1c), using DNA sequencing, PCR, PCR–RFLP, and forced PCR–RFLP methods. These polymorphisms include three missense mutations (SV1, SV4, and SV5) in exons 7, 9, and 12, a silent mutation (SV3) in exon 9, and a large deletion (SV2) in intron 7. Overall, we report the validation of polymorphisms within the bovine SREBP-1c gene, and the haplotype variability and extent of linkage disequilibrium (LD) in 1061 individuals representing the five main cattle breeds from China. We also investigated haplotype frequencies and LD coefficients for five SVs in all study populations. LD and haplotype structure of SREBP-1c were different between breeds. The result of haplotype analysis of five SVs showed that 27 different haplotypes were identified by all breeds. Two haplotypes (Hap1 and Hap2) shared by all five populations accounted for 42.75%, 35.68%, 36.44%, 25.43%, and 96.26% of all haplotypes observed in the cattle breeds Nanyang, Qinchuan, Jiaxian, Jinnan, and Chinese Holstein, respectively. The statistical analyses indicated that one single SV and 38 combined haplotypes were significantly associated with growth traits in the Nanyang cattle population (P < 0.05 or P < 0.01). The results of this study suggest that the SREBP-1c gene possibly is a strong candidate gene that affects growth traits in the Chinese beef cattle breeding program.
authors.affiliation: College of Animal Science and Technology, Northwest A&F University, Shaanxi Key Laboratory of Molecular Biology for Agriculture, Yangling Shaanxi 712100, China.
authors.forename: Yong-Zhen
authors.initials: YZ
authors.lastname: Huang
authors.forename: Hua
authors.initials: H
authors.lastname: He
authors.forename: Jia-Jie
authors.initials: JJ
authors.lastname: Sun
authors.forename: Jing
authors.initials: J
authors.lastname: Wang
authors.forename: Zhuan-Jian
authors.initials: ZJ
authors.lastname: Li
authors.forename: Xian-Yong
authors.initials: XY
authors.lastname: Lan
authors.forename: Chu-Zhao
authors.initials: CZ
authors.lastname: Lei
authors.forename: Chun-Lei
authors.initials: CL
authors.lastname: Zhang
authors.forename: En-Ping
authors.initials: EP
authors.lastname: Zhang
authors.forename: Ju-Qiang
authors.initials: JQ
authors.lastname: Wang
authors.forename: Hong
authors.initials: H
authors.lastname: Chen
mesh_terms: D000483:Alleles; D000818:Animals; D001947:Breeding; D002417:Cattle / Q000235:genetics*; D002681:China; D005091:Exons / Q000235:genetics; D005787:Gene Frequency; D005819:Genetic Markers; D005828:Genetics, Population; D005838:Genotype; D006239:Haplotypes; D007438:Introns; D016014:Linear Models; D015810:Linkage Disequilibrium; D016133:Polymerase Chain Reaction; D020641:Polymorphism, Single Nucleotide; D019655:Quantitative Trait, Heritable; D017422:Sequence Analysis, DNA; D051780:Sterol Regulatory Element Binding Protein 1 / Q000235:genetics* / Q000378:metabolism
chemical_list: D005819:Genetic Markers; D051780:Sterol Regulatory Element Binding Protein 1