Single Nucleotide Polymorphism （SNP） Analysis of orexin Gene 5＇ Regulatory Region in Chinese Indigenous Cattle Populations

• Published in: 中国农业科学：英文版 Vol. 10; no. 8; pp. 1273 - 1279
• Main Author: ZHANG Ai-ling ZHANG Li ZHANG Liang-zhi LAN Xian-yong ZHANG Cun-lei ZHANG Cun-fang CHEN Hong
• Format: Journal Article
• Language: English
• Published: 2011
• Subjects: SNPs; 中国人口; 单核苷酸多态性; 基因表达; 本地牛; 调控区; 转录因子结合位点; 食欲素
• ISSN: 1671-2927

Orexin is an important neuropeptide that influences livestock＇s appetite and food intake and is closely related with livestock＇s growth and development.The variations in the orexin gene 5＇ regulatory region might have an influence on the gene expression.Based on the hypothesis,five overlapped fragments including 1 794 bp of orexin gene 5＇ regulatory region were investigated for single nucleotide polymorphisms （SNPs） by PCR-SSCP and DNA sequencing in three indigenous cattle populations.A total of five SSCP patterns observed revealed ten SNPs in the region.Two SSCP patterns genotypes （A and B） were exhibited in O-2 fragment and three （A,B and C） were found in O-5 fragment.O-2 contained four SNPs,viz.,-583 TC,-479 CT,-474 AT,and-451 AG.In another lous O-5,six SNPs were identified （-1 610 CG,-1 585 GA,-1 550 TC,-1 548 AC,-1 438 CT,and-1 431 CA）.Seven SNPs were found in transcription factor binding sites and four out of them existed in the core sequences.The SNPs at-479,-474 and-451 did not change the putative recognition core sequences of their factors.But the mutation at-583 changed the binding sequence of EVI1 into NFA and created one new binding site for ZFHX simultaneously.In three populations,the frequencies of A,B and C genotypes of O-2 were 0.2367,0.4842 and 0.2791,respectively.And the A pattern of O-5 was preponderant （0.7549） and the other B pattern was not （0.2451）.But the frequencies of different SSCP variants varied across three cattle populations.B genotype in O-2 had significant associations to body weight （BW） and daily weight gain （DWG） in Nanyang cattle 6-and 12-mon aged and might serve as one potential candidate genetic marker for growth and development.