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| Single Nucleotide Polymorphism (SNP) Analysis of orexin Gene 5´ Regulatory Region in Chinese Indigenous Cattle Populations |
| Shaanxi Key Laboratory of Molecular Biology for Agriculture, College of Animal Science and Technology, Northwest A&F University |
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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.
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.
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Received: 12 November 2010
Accepted:
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Corresponding Authors:
Correspondence CHEN Hong, Professor, Tel: +86-29-87092004, Fax: +86-29-87092164, E-mail:hongchen1212@263.com
E-mail: zhangmeixiaL@163.com
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Cite this article:
ZHANG Ai-ling, ZHANG Li, ZHANG Liang-zhi, LAN Xian-yong, ZHANG Cun-lei, ZHANG Cun-fang, CHEN Hong.
2011.
Single Nucleotide Polymorphism (SNP) Analysis of orexin Gene 5´ Regulatory Region in Chinese Indigenous Cattle Populations. Journal of Integrative Agriculture, 10(8): 1273-1279.
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