title: Association analysis of bovine Foxa2 gene single sequence variant and haplotype combinations with growth traits in Chinese cattle.
abstract: Forkhead box A2 (Foxa2) has been recognized as one of the most potent transcriptional activators that is implicated in the control of feeding behavior and energy homeostasis. However, similar researches about the effects of genetic variations of Foxa2 gene on growth traits are lacking. Therefore, this study detected Foxa2 gene polymorphisms by DNA pool sequencing, PCR-RFLP and PCR-ACRS methods in 822 individuals from three Chinese cattle breeds. The results showed that four sequence variants (SVs) were screened, including two mutations (SV1, g. 7005 C>T and SV2, g. 7044 C>G) in intron 4, one mutation (SV3, g. 8449 A>G) in exon 5 and one mutation (SV4, g. 8537 T>C) in the 3'UTR. Notably, association analysis of the single mutations with growth traits in total individuals (at 24months) revealed that significant statistical difference was found in four SVs, and SV4 locus was highly significantly associated with growth traits throughout all three breeds (P<0.05 or P<0.01). Meanwhile, haplotype combination CCCCAGTC also indicated remarkably associated to better chest girth and body weight in Jiaxian Red cattle (P<0.05). We herein described a comprehensive study on the variability of bovine Foxa2 gene that was predictive of molecular markers in cattle breeding for the first time.
authors: College of Animal Science and Technology, Northwest A&F University, Shaanxi Key Laboratory of Molecular Biology for Agriculture, Yangling, Shaanxi 712100, China.
authors: Mei
authors: M
authors: Liu
authors: College of Animal Science and Technology, Northwest A&F University, Shaanxi Key Laboratory of Molecular Biology for Agriculture, Yangling, Shaanxi 712100, China; Key Laboratory of Crop High Quality and Efficient Cultivation and Security Control of College in Yunnan Province, Honghe University, Mengzi, Yunnan 661100, China.
authors: Mijie
authors: M
authors: Li
authors: College of Animal Science and Technology, Northwest A&F University, Shaanxi Key Laboratory of Molecular Biology for Agriculture, Yangling, Shaanxi 712100, China.
authors: Shaoqiang
authors: S
authors: Wang
authors: College of Animal Science and Technology, Northwest A&F University, Shaanxi Key Laboratory of Molecular Biology for Agriculture, Yangling, Shaanxi 712100, China.
authors: Yao
authors: Y
authors: Xu
authors: College of Animal Science and Technology, Northwest A&F University, Shaanxi Key Laboratory of Molecular Biology for Agriculture, Yangling, Shaanxi 712100, China.
authors: Xianyong
authors: X
authors: Lan
authors: College of Animal Science and Technology, Northwest A&F University, Shaanxi Key Laboratory of Molecular Biology for Agriculture, Yangling, Shaanxi 712100, China.
authors: Zhuanjian
authors: Z
authors: Li
authors: College of Animal Science and Technology, Northwest A&F University, Shaanxi Key Laboratory of Molecular Biology for Agriculture, Yangling, Shaanxi 712100, China.
authors: Chuzhao
authors: C
authors: Lei
authors: Department of Biology, Dezhou University, Dezhou, Shandong 253023, China.
authors: Dongying
authors: D
authors: Yang
authors: Institute of Animal Husbandry and Veterinary, Anhui Academy of Agricultural Sciences, Hefei, Anhui 230031, China.
authors: Yutang
authors: Y
authors: Jia
authors: College of Animal Science and Technology, Northwest A&F University, Shaanxi Key Laboratory of Molecular Biology for Agriculture, Yangling, Shaanxi 712100, China. Electronic address: chenhong1212@263.net.
authors: Hong
authors: H
authors: Chen
mesh_terms: D000818:Animals; D001835:Body Weight / Q000235:genetics; D001947:Breeding; D002417:Cattle; D005091:Exons / Q000235:genetics; D005260:Female; D006239:Haplotypes / Q000235:genetics*; D051542:Hepatocyte Nuclear Factor 3-beta / Q000235:genetics*; D007438:Introns / Q000235:genetics; D015810:Linkage Disequilibrium / Q000235:genetics; D020641:Polymorphism, Single Nucleotide / Q000235:genetics*; D017422:Sequence Analysis, DNA
chemical_list: D051542:Hepatocyte Nuclear Factor 3-beta
keywords: ANOVA; Analysis of variance; Association; Cattle; DLK1; Delta-like 1; EM; Expectation maximization; FTO; Fat mass and obesity associated; Forkhead box A2; Foxa2; Foxa2 gene; G6PC2; Growth traits; HNF-3; HWE; Haplotype combination; Hardy–Weinberg equilibrium; Hepatocyte nuclear factor 3; JX; Jiaxian Red; LD; Linkage disequilibrium; NY; Nanyang; PCR-ACRS; PCR-based amplification-created restriction site; PCR–RFLP; PIC; Polymerase chain reaction–restriction fragment length polymorphism; Polymorphism information content; QC; Qinchuan; SNPs; SVs; Sequence variant; Sequence variants; Single nucleotide polymorphisms; UTR; Unstranslated region(s); glucose-6-phosphatase catalytic subunit 2