大白猪及巴马香猪GHRH基因的SNPs筛选及其与体尺的相关性分析
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摘要
为了解影响猪生长和体尺的重要候选基因(GHRH基因)多态性与猪体尺的相关性,选取大白猪为大型猪的代表,巴马香猪为小型猪的代表,利用测序法筛查了两猪种间GHRH基因上存在的SNPs,统计了各个SNP在2个猪种的基因型频率及等位基因频率,然后基于基因型频率对每个SNP与猪体型的相关性进行分析,并将筛选到的与猪体型相关的SNPs进行连锁不平衡及单倍型分析。结果表明:共有7个SNPs存在于两猪种间,分别为g.1874A>C、g.2276A>G、g.4165 C>-、g.4238T>C、g.8079 I>-(GTGCTGGCGTGAG缺失)、g.8114A>G及g.8178A>G,且这些SNPs均与猪体尺性状显著相关,其中g.2276A>G和g.4165 C>-存在连锁效应,并且大白猪形成的优势单倍型为AC,而巴马香猪为G-型,单倍型频率在两猪种间存在极显著差异(P<0. 001);位于基因内含子4的3个位点(g.8079 I>-、g.8114 A>G及g.8178A>G)在大白猪中形成的单倍型为-GA,而巴马香猪为IAG,单倍型频率在两猪种间存在极显著差异(P<0. 001)。这说明猪GHRH基因上存在的SNPs与猪体尺相关,可作为猪种遗传性状及育种的筛选标记,将为提高养猪经济效益及猪育种提供理论依据。
GHRH gene is considered as an important candidate gene affecting pig growth and body size. To analyze the relationship between polymorphisms of GHRH gene and pig body traits,Bama Xiang pigs,as a representative of miniature pigs,were used to screen SNPs in the GHRH gene,while Large White pigs were selected as large pigs. Genotype frequency and allele frequency of the two pig breeds were counted according to the sequence results,then the correlations between each SNP and the pig body were determined based on genotype frequency and further defined by linkage disequilibrium and haplotype analysis. The results showed that 7 SNPs( g.1874 A>C,g.2276 A>G,g.4165 C>-,g.4238 T>C,g.8079 I >-( GTGCTGGCGTGAG delete),g.8114 A >G and g.8178 A >G) were detected in the two pig breeds and these SNPs are all significantly associated with the body size traits of pigs,in which g. 2276 A >G and g. 4165 C >-had a chain effect,and the dominant haplotype formed by Large White pigs was AC,while that of Bama Xiang pigs was G-type. The haplotype frequency was significantly different between the two pig breeds( P< 0. 001). The haplotype formed in Large White pigs at the three loci of gene intron 4( g. 8079 I >-,g. 8114 A > G and g.8178 A>G) was-GA while that of Bama Xiang pigs was IAG haplotype,and the haplotype frequency was significantly different between the two pig breeds( P<0. 001). The results indicate that the SNPs present in the pig GHRH gene are associated to the pig body size,and can be used as a screening marker for the genetic traits and breeding of pigs. These data will provide a theoretical basis for improving the economic benefits of pig breeding.
GHRH gene is considered as an important candidate gene affecting pig growth and body size. To analyze the relationship between polymorphisms of GHRH gene and pig body traits,Bama Xiang pigs,as a representative of miniature pigs,were used to screen SNPs in the GHRH gene,while Large White pigs were selected as large pigs. Genotype frequency and allele frequency of the two pig breeds were counted according to the sequence results,then the correlations between each SNP and the pig body were determined based on genotype frequency and further defined by linkage disequilibrium and haplotype analysis. The results showed that 7 SNPs( g.1874 A>C,g.2276 A>G,g.4165 C>-,g.4238 T>C,g.8079 I >-( GTGCTGGCGTGAG delete),g.8114 A >G and g.8178 A >G) were detected in the two pig breeds and these SNPs are all significantly associated with the body size traits of pigs,in which g. 2276 A >G and g. 4165 C >-had a chain effect,and the dominant haplotype formed by Large White pigs was AC,while that of Bama Xiang pigs was G-type. The haplotype frequency was significantly different between the two pig breeds( P< 0. 001). The haplotype formed in Large White pigs at the three loci of gene intron 4( g. 8079 I >-,g. 8114 A > G and g.8178 A>G) was-GA while that of Bama Xiang pigs was IAG haplotype,and the haplotype frequency was significantly different between the two pig breeds( P<0. 001). The results indicate that the SNPs present in the pig GHRH gene are associated to the pig body size,and can be used as a screening marker for the genetic traits and breeding of pigs. These data will provide a theoretical basis for improving the economic benefits of pig breeding.
引文
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[12]张霞,王配,霍金龙,王淑燕.版纳微型猪近交系BARD1基因克隆、mRNA表达及蛋白质功能生物信息学分析[J].吉林农业大学学报,2018,40(1):103-109.
[13]邱梅玉,黄涛,胡九英,等.ESR与ITGB1基因多态性对大白猪繁殖性能的影响[J].中国兽医学报,2018,38(9):1798-1803.
[2] Ren Xiaohui,Zhang Yongliang,Luo Huying,et al. PLGA microsphere-mediated growth hormone release hormone expression induces intergenerational growth[J]. Animal Biotechnology,2009,20(3):124-132.
[3]李雨萌,洪盼,兰海楠,等.生长激素促进细胞增殖机理的研究进展[J].中国畜牧兽医,2015,42(1):147-152.
[4] Dybus A,Kmiec M,Sobek Z,et al. Associations between polymorphisms of growth hormone releasing hormone(GHRH)and pituitary transcription factor 1(PIT1)genes and production traits of Limousine cattle[J]. Arch Tierz Dummerstorf,2003,6:527-534.
[5] Cheong H S,Yoon D H,Kim L H,et al. Growth hormone-releasing hormone(GHRH)polymorphisms associated with carcass traits of meat in Korean cattle[J]. BMC Genetics,2006,7:35-40.
[6]刘凯,李密杰,刘忠清,等.山羊重要基因的多态分析及与部分体尺性状的相关性[J].中国畜牧杂志,2010(21):13-15.
[7] Terenina E,Babigumira B M,Le Mignon G,et al. Association study of molecular polymorphisms in candidate genes related to stress responses with production and meat quality traits in pigs[J]. Domestic Animal Endocrinology,2013,44(2):81-97.
[8] Nei M. Analysis of gene diversity in subdivided populations[J]. Proc Natl Acad Sci,1973,70(12):3321-3323.
[9] Khan A S,Bodles-Brakhop A M,Fiorotto M L,et al. Effects of maternal plasmid GHRH treatment on off spring growth[J].Vaccine,2010,28(8):1905-1910.
[10]李常红,张明国,胡玮宜,等.不同猪种IGF1R基因扩增及SNPs的筛选[J].吉林农业大学学报,2018,40(6):734-739.
[11]郭南南,李梦静,欧阳红生.猪出生后Ig G重链基因多样性的比较[J].吉林农业大学学报,2017,39(6):716-722,726.
[12]张霞,王配,霍金龙,王淑燕.版纳微型猪近交系BARD1基因克隆、mRNA表达及蛋白质功能生物信息学分析[J].吉林农业大学学报,2018,40(1):103-109.
[13]邱梅玉,黄涛,胡九英,等.ESR与ITGB1基因多态性对大白猪繁殖性能的影响[J].中国兽医学报,2018,38(9):1798-1803.