猪内脏与胴体重的GWAS分析以及猪肉C20:0脂肪酸含量变异的遗传解析
发布时间：2018-09-19 16:00
【摘要】：随着基因组学研究以及基因芯片技术的发展,人们通过全基因组关联分析(GWAS)的研究策略发现了大量影响复杂性状的遗传变异。近年来,该方法在筛选和鉴定农业动物重要经济性状的主效基因和因果位点中得到了广泛应用。猪作为国内最重要的肉类供应动物,对其重要经济性状的研究更受关注。本研究以五个实验群体:F2资源家系群体、苏太群体、莱芜群体、二花脸群体和杜长大商业群体共2650个体为研究对象,利用猪60K SNP芯片对这些个体进行高通量基因分型,并记录内脏(心脏、肝脏、脾脏和肾脏)重和胴体重以及C20:0脂肪酸含量等重要经济性状,采用GWAS及Meta-GWAS的策略进行分析,拟定位与这些性状显著相关的主效位点。在此基础上,综合运用单倍型分析、IBD分析、断点重组分析等多种统计学手段精细定位影响C20:0含量相关的数量性状位点(QTL),旨在找到影响C20:0的数量性状基因(QTG)以及找到相应的数量性状核苷酸(QTN),进一步深入解析猪16号染色体上影响肌肉中C20:0的主效QTL的分子遗传机理。结果表明:1)利用猪60K芯片在五个群体中共检测到10个基因组显著水平的QTL,4个与心脏重相关,2个与肝脏重相关,2个与脾脏重相关,1个与胴体重相关,1个与C20:0相关。此外,本研究还定为到一个一因多效的QTL,7号染色体上的QTL同时影响心脏重和肝脏重。2)采用meta-GWAS分析后,有62%的达到基因组显著水平的QTL在Meta分析中得到了验证,并且新现了4个显著影胴体重的QTL。3)利用单倍型分析、IBD分析以及Meta分析等研究策略,将C20:0含量定位于41.3-43.4 Mb处,并在这一区间找到了影响C20:0的候选基因ELOVL7。4)利用实验室6头F0重测序数据,挖掘出11个与QTL基因型相符合的SNPs,经过在苏太群体中的验证,最后剩下(42561841和42564441bp)2个候选SNPs。5)为了验证ELOVL7对C20:0脂肪酸的生物学影响,随机选取120个F2个体的眼肌进行RNA定量表达实验,利用60K芯片结果进行eQTL GWAS分析,在SSC16 40.7Mb(位于ELOVL7附近)处检测到显著影响C20:0 RNA表达量的标记ALGA0090412。本研究将为后期鉴别内脏和胴体重的遗传结构以及深入解析猪肉中C20:0含量变异的遗传结构奠定基础。
[Abstract]:With the development of genomics and gene chip technology, a large number of genetic variations affecting complex traits have been discovered through the research strategy of genome-wide association analysis (GWAS). In recent years, this method has been widely used in the screening and identification of major genes and causal loci of important economic traits in agricultural animals. As the most important meat supplier in China, pigs have been paid more attention to their important economic characters. In this study, a total of 2650 individuals from five experimental populations: F _ 2 resource family, Sutai, Laiwu, Erhualian and du Changlong commercial population were selected as subjects. The high throughput genotyping of these individuals was carried out by using 60 K SNP chip. The visceral weight (heart, liver, spleen and kidney), carcass weight and C20: 0 fatty acid content were recorded and analyzed by GWAS and Meta-GWAS. On this basis, the haplotype analysis and IBD analysis are used synthetically. (QTL), a quantitative trait locus related to C20: 0 content, is designed to find the quantitative trait gene (QTG), which affects C20: 0, and to find the nucleotide (QTN), of the corresponding quantitative trait to further analyze the quantitative trait locus, such as breakpoint recombination analysis and so on. Molecular genetic mechanism of dominant QTL in muscle affected by C20: 0 on chromosome 16. The results showed that 10 genome-wide significant levels of QTL, were detected in five populations using 60 K porcine microarray. Four of them were correlated with heart weight, two with liver weight, two with spleen weight, one with carcass weight and one with C20: 0. In addition, this study was determined to be a multieffectual QTL on chromosome 7 of QTL, that affects both heart and liver weights. After meta-GWAS analysis, 62% of QTL with genomic significance were verified by Meta analysis. And four new QTL.3 with significant carcass weight were developed. By using haplotype analysis and Meta analysis, the content of C20: 0 was located at 41.3-43.4 Mb, and the content of C20: 0 was located at 41.3-43.4 Mb, and the content of C20: 0 was located at 41.3-43.4 Mb. The candidate gene ELOVL7.4, which affects C20: 0, was found in this region. Using 6 F0 resequenced data from the laboratory, 11 SNPs, corresponding to the QTL genotype were found to have been verified in the Sutai population. In order to verify the biological effect of ELOVL7 on C20: 0 fatty acids, 120 F2 individuals were randomly selected for RNA quantitative expression experiment. EQTL GWAS analysis was performed using 60K microarray. Marker ALGA0090412. was detected at SSC16 40.7Mb (near ELOVL7) that significantly affected the expression of C20: 0 RNA This study will lay a foundation for the identification of the genetic structure of viscera and carcass weight and the further analysis of the genetic structure of the variation of C20: 0 content in pork.
【学位授予单位】：江西农业大学
【学位级别】：硕士
【学位授予年份】：2015
【分类号】：S828
本文编号：2250606
[Abstract]:With the development of genomics and gene chip technology, a large number of genetic variations affecting complex traits have been discovered through the research strategy of genome-wide association analysis (GWAS). In recent years, this method has been widely used in the screening and identification of major genes and causal loci of important economic traits in agricultural animals. As the most important meat supplier in China, pigs have been paid more attention to their important economic characters. In this study, a total of 2650 individuals from five experimental populations: F _ 2 resource family, Sutai, Laiwu, Erhualian and du Changlong commercial population were selected as subjects. The high throughput genotyping of these individuals was carried out by using 60 K SNP chip. The visceral weight (heart, liver, spleen and kidney), carcass weight and C20: 0 fatty acid content were recorded and analyzed by GWAS and Meta-GWAS. On this basis, the haplotype analysis and IBD analysis are used synthetically. (QTL), a quantitative trait locus related to C20: 0 content, is designed to find the quantitative trait gene (QTG), which affects C20: 0, and to find the nucleotide (QTN), of the corresponding quantitative trait to further analyze the quantitative trait locus, such as breakpoint recombination analysis and so on. Molecular genetic mechanism of dominant QTL in muscle affected by C20: 0 on chromosome 16. The results showed that 10 genome-wide significant levels of QTL, were detected in five populations using 60 K porcine microarray. Four of them were correlated with heart weight, two with liver weight, two with spleen weight, one with carcass weight and one with C20: 0. In addition, this study was determined to be a multieffectual QTL on chromosome 7 of QTL, that affects both heart and liver weights. After meta-GWAS analysis, 62% of QTL with genomic significance were verified by Meta analysis. And four new QTL.3 with significant carcass weight were developed. By using haplotype analysis and Meta analysis, the content of C20: 0 was located at 41.3-43.4 Mb, and the content of C20: 0 was located at 41.3-43.4 Mb, and the content of C20: 0 was located at 41.3-43.4 Mb. The candidate gene ELOVL7.4, which affects C20: 0, was found in this region. Using 6 F0 resequenced data from the laboratory, 11 SNPs, corresponding to the QTL genotype were found to have been verified in the Sutai population. In order to verify the biological effect of ELOVL7 on C20: 0 fatty acids, 120 F2 individuals were randomly selected for RNA quantitative expression experiment. EQTL GWAS analysis was performed using 60K microarray. Marker ALGA0090412. was detected at SSC16 40.7Mb (near ELOVL7) that significantly affected the expression of C20: 0 RNA This study will lay a foundation for the identification of the genetic structure of viscera and carcass weight and the further analysis of the genetic structure of the variation of C20: 0 content in pork.
【学位授予单位】：江西农业大学
【学位级别】：硕士
【学位授予年份】：2015
【分类号】：S828
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