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

doi:10.1016/S1671-2927(11)60119-3

摘要/Abstract

摘要： Orexin is an important neuropeptide that influences livestock’s appetite and food intake and is closely related withlivestock’s growth and development. The variations in the orexin gene 5´ regulatory region might have an influence onthe gene expression. Based on the hypothesis, five overlapped fragments including 1 794 bp of orexin gene 5´ regulatoryregion were investigated for single nucleotide polymorphisms (SNPs) by PCR-SSCP and DNA sequencing in threeindigenous cattle populations. A total of five SSCP patterns observed revealed ten SNPs in the region. Two SSCP patternsgenotypes (A and B) were exhibited in O-2 fragment and three (A, B and C) were found in O-5 fragment. O-2 contained fourSNPs, viz., -583 T>C, -479 C>T, -474 A>T, and -451 A>G. In another lous O-5, six SNPs were identified (-1 610 C>G,-1 585 G>A, -1 550 T>C, -1 548 A>C, -1 438 C>T, and -1 431 C>A). Seven SNPs were found in transcription factor bindingsites and four out of them existed in the core sequences. The SNPs at -479, -474 and -451 did not change the putativerecognition core sequences of their factors. But the mutation at -583 changed the binding sequence of EVI1 into NFA andcreated one new binding site for ZFHX simultaneously. In three populations, the frequencies of A, B and C genotypesof 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 Bpattern was not (0.2451). But the frequencies of different SSCP variants varied across three cattle populations. Bgenotype in O-2 had significant associations to body weight (BW) and daily weight gain (DWG) in Nanyang cattle 6- and12-mon aged and might serve as one potential candidate genetic marker for growth and development.

关键词:

orexin gene, promoter, SNP, cattle

Abstract: Orexin is an important neuropeptide that influences livestock’s appetite and food intake and is closely related withlivestock’s growth and development. The variations in the orexin gene 5´ regulatory region might have an influence onthe gene expression. Based on the hypothesis, five overlapped fragments including 1 794 bp of orexin gene 5´ regulatoryregion were investigated for single nucleotide polymorphisms (SNPs) by PCR-SSCP and DNA sequencing in threeindigenous cattle populations. A total of five SSCP patterns observed revealed ten SNPs in the region. Two SSCP patternsgenotypes (A and B) were exhibited in O-2 fragment and three (A, B and C) were found in O-5 fragment. O-2 contained fourSNPs, viz., -583 T>C, -479 C>T, -474 A>T, and -451 A>G. In another lous O-5, six SNPs were identified (-1 610 C>G,-1 585 G>A, -1 550 T>C, -1 548 A>C, -1 438 C>T, and -1 431 C>A). Seven SNPs were found in transcription factor bindingsites and four out of them existed in the core sequences. The SNPs at -479, -474 and -451 did not change the putativerecognition core sequences of their factors. But the mutation at -583 changed the binding sequence of EVI1 into NFA andcreated one new binding site for ZFHX simultaneously. In three populations, the frequencies of A, B and C genotypesof 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 Bpattern was not (0.2451). But the frequencies of different SSCP variants varied across three cattle populations. Bgenotype in O-2 had significant associations to body weight (BW) and daily weight gain (DWG) in Nanyang cattle 6- and12-mon aged and might serve as one potential candidate genetic marker for growth and development.

Key words:

orexin gene, promoter, SNP, cattle

ZHANG Ai-ling, ZHANG Li, ZHANG Liang-zhi, LAN Xian-yong, ZHANG Cun-lei, ZHANG Cun-fang, CHEN Hong. Single Nucleotide Polymorphism (SNP) Analysis of orexin Gene 5´ Regulatory Region in Chinese Indigenous Cattle Populations[J]. Journal of Integrative Agriculture, 2011, 10(8): 1273-1279.

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