The Duroc pig has high adaptability and feeding efficiency, making it one of the most popular pig breeds worldwide. Over long periods of natural and artificial selection, genetic footprints, i.e., selective signatures...The Duroc pig has high adaptability and feeding efficiency, making it one of the most popular pig breeds worldwide. Over long periods of natural and artificial selection, genetic footprints, i.e., selective signatures, were left in the genome. In this study, a Duroc pig population （n=715） was genotyped with the Porcine SNP60K Bead Chip and the GeneSeek Genomic Profiler （GGP） Porcine Chip. The relative extended haplotype homozygosity （REHH） method was used for selective signature detection in a subset of the population （n=368）, selected to represent a balanced family structure. In total, 154 significant core regions were detected as selective signatures （,P〈0.01）, some of which overlap with previously reported quantitative trait loci associated with several economically important traits, including average daily gain and backfat thickness. Genome annotation for these significant core regions revealed a variety of interesting candidate genes including GATA3, TAF3, ATP5C1, and FGFI. These genes were functionally related to anterior/posterior pattern specification, phosphatidylinositol 3-kinase signaling, embryonic skeletal system morphogenesis, and oxidation-reduction processes. This research provides knowledge for the study of selection mechanisms and breeding practices in Duroc and other pigs.展开更多
Intramuscular fat(IMF) is a major meat-quality trait in pigs. The content of IMF is directly associated with the taste and flavor of pork. As a complex trait, there could be multiple genes affecting IMF content in por...Intramuscular fat(IMF) is a major meat-quality trait in pigs. The content of IMF is directly associated with the taste and flavor of pork. As a complex trait, there could be multiple genes affecting IMF content in pork. Genomewide association study is a powerful tool to detect genomic regions associated with phenotypic variations. The objectives of the present study were to identify or refine the positions of genomic regions affecting IMF, and to characterize candidate genes and pathways that may influence this trait. Of note, we identified a significant region in longissium dorsi muscle in a Duroc pig population for IMF content with Porcine SNP60 v2 Bead Chip. This region spans 1.24 Mb on chromosome 8 and had been identified as a quantitative trait locus for IMF in Pietrain, Large White, Landrace, and Leicoma pigs. In this region, eight SNPs were significantly associated with IMF content. Three genes proximal to these significant SNPs were considered candidate genes, including ZDHHC16, LOC102162218 and PCDH7. Our results confirm several previous findings and highlight several genes that may contribute to IMF variation in Duroc pigs.展开更多
【目的】揭示基于动物模型最佳线性无偏预测(animal model best linear unbiased prediction,AM-BLUP)的选择指数对杜洛克猪生长及繁殖性状的选育效果。【方法】在采用AM-BLUP方法估计个体目标性状育种值基础上,以达100 kg体质量日龄(...【目的】揭示基于动物模型最佳线性无偏预测(animal model best linear unbiased prediction,AM-BLUP)的选择指数对杜洛克猪生长及繁殖性状的选育效果。【方法】在采用AM-BLUP方法估计个体目标性状育种值基础上,以达100 kg体质量日龄(相对权重0.7)和100 kg活体背膘厚(相对权重0.3)为主选性状构建选择指数,对1个闭锁的杜洛克猪群开展持续7年(2013—2019年)的选育,系统分析选育期间猪群6个生长及繁殖性状表型值、估计育种值(estimated breeding value,EBV)、选择指数及近交系数的变化。【结果】相较于2013年,2019年猪群达100 kg体质量日龄、100 kg活体背膘厚和30~100 kg料重比分别极显著缩短4.45 d、降低0.52 mm和降低0.05(P<0.01);初产和经产母猪的总产仔数分别提高0.99头(P<0.05)和1.02头(P>0.05),产活仔数分别提高0.72头和0.49头(P>0.05),21日龄窝重分别降低0.39 kg和提高6.20 kg(P>0.05);主选性状达100 kg体质量日龄和100 kg活体背膘厚的EBV分别极显著降低3.447和0.533(P<0.01),选择指数极显著提高23.62(P<0.01),除30~100 kg料重比外,其余辅选性状的EBV均获得了不同程度改进。选育结束时,群体平均近交系数为3.1973%,年均增量为0.4904%。【结论】基于AM-BLUP的指数选择可有效改良猪的生产性状,但不同性状的具体选择进展会因其遗传特性的不同而异。展开更多
研究旨在利用高通量芯片数据对温氏集团某核心场3334头美系杜洛克猪的生长性状和体尺性状进行遗传参数估计,以期为杜洛克猪的生长性状和体尺性状遗传评估和改良提供参考。利用GCTA软件的REML方法对上述杜洛克种猪个体的50 k SNP芯片数...研究旨在利用高通量芯片数据对温氏集团某核心场3334头美系杜洛克猪的生长性状和体尺性状进行遗传参数估计,以期为杜洛克猪的生长性状和体尺性状遗传评估和改良提供参考。利用GCTA软件的REML方法对上述杜洛克种猪个体的50 k SNP芯片数据和达100kg体重日龄(AGE)、达100kg日增重(ADG)、达100kg体重背膘厚度(BF)、达100 kg瘦肉率(LMP)、体长(BL)、体高(BH)、管围(CC)、腹围(AC)、胸围(CHC)和腰围(WAC)性状的表型值进行分析,估计各性状的遗传力和性状间的遗传相关,固定效应包括场、年、季节和性别。结果表明:AGE、ADG、BF、LMP、BL、BH、CC、CHC、AC和WAC的遗传力分别为0.40、0.41、0.31、0.39、0.16、0.17、0.16、0.05、0.03和0.14。此外,各性状间的遗传相关变化范围介于-0.98~0.99,部分性状间呈强相关性,可对美系杜洛克种猪的相关性状进行协同选择,进而加快目标性状的遗传改良进展。展开更多
基金supported by the earmarked fund for the China Agriculture Research System (CARS-35)the National Natural Science Foundation of China (31772556)+2 种基金the Basic Work of Science and Technology Project, China (2014FY120800)the Pearl River S&T Nova Program of Guangzhou, China (201506010027)the Guangdong S&T Project, China (2017A020208043)
文摘The Duroc pig has high adaptability and feeding efficiency, making it one of the most popular pig breeds worldwide. Over long periods of natural and artificial selection, genetic footprints, i.e., selective signatures, were left in the genome. In this study, a Duroc pig population （n=715） was genotyped with the Porcine SNP60K Bead Chip and the GeneSeek Genomic Profiler （GGP） Porcine Chip. The relative extended haplotype homozygosity （REHH） method was used for selective signature detection in a subset of the population （n=368）, selected to represent a balanced family structure. In total, 154 significant core regions were detected as selective signatures （,P〈0.01）, some of which overlap with previously reported quantitative trait loci associated with several economically important traits, including average daily gain and backfat thickness. Genome annotation for these significant core regions revealed a variety of interesting candidate genes including GATA3, TAF3, ATP5C1, and FGFI. These genes were functionally related to anterior/posterior pattern specification, phosphatidylinositol 3-kinase signaling, embryonic skeletal system morphogenesis, and oxidation-reduction processes. This research provides knowledge for the study of selection mechanisms and breeding practices in Duroc and other pigs.
基金financial support from the National Natural Science Foundation of China (31601912)the Natural Science Foundation of Guangdong Province (2016A030310447)the Applied Science and Technology Research and Development of Special Funds of Guangdong Province (2015B020231010)
文摘Intramuscular fat(IMF) is a major meat-quality trait in pigs. The content of IMF is directly associated with the taste and flavor of pork. As a complex trait, there could be multiple genes affecting IMF content in pork. Genomewide association study is a powerful tool to detect genomic regions associated with phenotypic variations. The objectives of the present study were to identify or refine the positions of genomic regions affecting IMF, and to characterize candidate genes and pathways that may influence this trait. Of note, we identified a significant region in longissium dorsi muscle in a Duroc pig population for IMF content with Porcine SNP60 v2 Bead Chip. This region spans 1.24 Mb on chromosome 8 and had been identified as a quantitative trait locus for IMF in Pietrain, Large White, Landrace, and Leicoma pigs. In this region, eight SNPs were significantly associated with IMF content. Three genes proximal to these significant SNPs were considered candidate genes, including ZDHHC16, LOC102162218 and PCDH7. Our results confirm several previous findings and highlight several genes that may contribute to IMF variation in Duroc pigs.
文摘研究旨在利用高通量芯片数据对温氏集团某核心场3334头美系杜洛克猪的生长性状和体尺性状进行遗传参数估计,以期为杜洛克猪的生长性状和体尺性状遗传评估和改良提供参考。利用GCTA软件的REML方法对上述杜洛克种猪个体的50 k SNP芯片数据和达100kg体重日龄(AGE)、达100kg日增重(ADG)、达100kg体重背膘厚度(BF)、达100 kg瘦肉率(LMP)、体长(BL)、体高(BH)、管围(CC)、腹围(AC)、胸围(CHC)和腰围(WAC)性状的表型值进行分析,估计各性状的遗传力和性状间的遗传相关,固定效应包括场、年、季节和性别。结果表明:AGE、ADG、BF、LMP、BL、BH、CC、CHC、AC和WAC的遗传力分别为0.40、0.41、0.31、0.39、0.16、0.17、0.16、0.05、0.03和0.14。此外,各性状间的遗传相关变化范围介于-0.98~0.99,部分性状间呈强相关性,可对美系杜洛克种猪的相关性状进行协同选择,进而加快目标性状的遗传改良进展。
