Although quantitative trait loci（QTLs） for number of thoracic-lumbar vertebrae have been identified on Sus scrofa chromosomes（SSCs） 1 and 7, the influence of these QTLs on the thoracic and lumbar vertebrae is not ...Although quantitative trait loci（QTLs） for number of thoracic-lumbar vertebrae have been identified on Sus scrofa chromosomes（SSCs） 1 and 7, the influence of these QTLs on the thoracic and lumbar vertebrae is not clear. The aim of this study was to identify single nucleotide polymorphisms（SNPs） associated with total number of thoracic-lumbar vertebrae and for each trait（number of thoracic and lumbar vertebrae） separately. A total of 581 individuals from an F2 Large White×Minzhu population were genotyped using an SNP60 K chip. Performing a genome-wide association study（GWAS） for total number of thoracic-lumbar vertebrae, 38 significant SNPs were identified in two QTL regions located on SSC1 and SSC7. Performing a GWAS for number of thoracic vertebrae only, 72 significant SNPs were located on SSC7. While performing a GWAS for number of lumbar vertebrae only, 17 significant SNPs were identified on SSC1. Gene mining suggested that the gene encoding orphan nuclear receptor, germ cell nuclear factor（NR6A1） on SSC1 was a strong candidate affecting the number of lumbar vertebrae in pigs. Additionally, genes encoding vertnin（VRTN）, prospero homeobox 2（PROX2）, Finkel-Biskis-Jinkins murine osteosarcoma viral oncogene homolog（FOS）, and transforming growth factor beta 3（TGFB3） may be important candidates affecting the number of thoracic vertebrae in pigs. QTLs on SSC1 and SSC7 independently influenced the numbers of thoracic and lumbar vertebrae. These results shed light on the complex genetic background of vertebrae development in pigs.展开更多
Background: Mutations in mitochondrial tRNA genes have been widely reported association with human reproductions.It is also important to explore the effect on the number of piglets born alive(NBA).Here,1017 sows were ...Background: Mutations in mitochondrial tRNA genes have been widely reported association with human reproductions.It is also important to explore the effect on the number of piglets born alive(NBA).Here,1017 sows were used to investigate the association between polymorphisms in mitochondrial tRNA genes and NBA.Results: In total,16 mutations were found in mitochondrial tRNA genes,of which 13 mutations were significantly associated with NBA(P < 0.05).The reproductions of mutant carriers were significantly greater than that of wild carriers by 0.989 piglets born alive/sow farrowing.To test whether the mutations altered the structure of mitochondrial tRNAs,the secondary and tertiary structures were predicted.In result,C2255 T changed the secondary structure of t RNA-Val by elongating the T stem and shrinking the T loop,and C2255 T and G2259 A in the tRNA-Val gene,C6217 T and T6219 C in the tRNA-Ala gene,and T15283 C in the tRNA-Glu gene altered the tertiary structure of their tRNAs,respectively by changing the folding form of the T arm,and C16487 T in the tRNA-Thr gene changed the tertiary structure of mitochondrial tRNA-Thr by influencing the folding form of the acceptor arm.Conclusions: Results highlight the effect of mitochondrial tRNA genes on the number of piglets born alive,and suggest that polymorphic sites of the tRNA genes be genetic markers for selection of pig reproduction.展开更多
本研究旨在挖掘影响蕨麻猪总产仔数(Total number born,TNB)和产活仔数(Number born alive,NBA)的候选基因,为蕨麻猪高繁殖力基因组选育提供参考数据。采集140头蕨麻猪耳组织样品,提取DNA,利用50K液相芯片进行SNPs检测。分别采用广义线...本研究旨在挖掘影响蕨麻猪总产仔数(Total number born,TNB)和产活仔数(Number born alive,NBA)的候选基因,为蕨麻猪高繁殖力基因组选育提供参考数据。采集140头蕨麻猪耳组织样品,提取DNA,利用50K液相芯片进行SNPs检测。分别采用广义线性模型和混合线性模型对140头蕨麻猪个体的SNPs与TNB和NBA进行全基因组关联分析(Genome-wide association studies,GWAS),筛选影响该群体繁殖性状的候选基因。结果显示:针对TNB和NBA等2个性状,广义线性模型分别检测到14个和1个显著的SNPs位点。混合线性模型检测到TNB有2个显著的SNPs位点;未检测到显著影响NBA的SNP。筛选ZCCHC24、ENSSSCG00000046125和TENM1作为影响TNB的重要候选基因,ZCCHC24作为影响NBA的重要候选基因。展开更多
基金supported by the Agricultural Science and Technology Innovation Program, China (ASTIP-IAS02)the National Key Technology R&D Program of China (2011BAD28B01)+3 种基金the National Natural Science Foundation of China (31201781)the Earmarked Fund for Modern Agro-Industry Technology Research Systemthe National Key Technology R&D Program of China (2011ZX08006-003)the Chinese Academy of Agricultural Sciences Foundation (2014ZL006, 2011cj-5, 2012ZL069 and 2014ywf-yb-8)
文摘Although quantitative trait loci（QTLs） for number of thoracic-lumbar vertebrae have been identified on Sus scrofa chromosomes（SSCs） 1 and 7, the influence of these QTLs on the thoracic and lumbar vertebrae is not clear. The aim of this study was to identify single nucleotide polymorphisms（SNPs） associated with total number of thoracic-lumbar vertebrae and for each trait（number of thoracic and lumbar vertebrae） separately. A total of 581 individuals from an F2 Large White×Minzhu population were genotyped using an SNP60 K chip. Performing a genome-wide association study（GWAS） for total number of thoracic-lumbar vertebrae, 38 significant SNPs were identified in two QTL regions located on SSC1 and SSC7. Performing a GWAS for number of thoracic vertebrae only, 72 significant SNPs were located on SSC7. While performing a GWAS for number of lumbar vertebrae only, 17 significant SNPs were identified on SSC1. Gene mining suggested that the gene encoding orphan nuclear receptor, germ cell nuclear factor（NR6A1） on SSC1 was a strong candidate affecting the number of lumbar vertebrae in pigs. Additionally, genes encoding vertnin（VRTN）, prospero homeobox 2（PROX2）, Finkel-Biskis-Jinkins murine osteosarcoma viral oncogene homolog（FOS）, and transforming growth factor beta 3（TGFB3） may be important candidates affecting the number of thoracic vertebrae in pigs. QTLs on SSC1 and SSC7 independently influenced the numbers of thoracic and lumbar vertebrae. These results shed light on the complex genetic background of vertebrae development in pigs.
基金supported by the National Key Basic Research Program of China(2014CB138500)the National Natural Science Foundations of China(31672379 and 31661143013)
文摘Background: Mutations in mitochondrial tRNA genes have been widely reported association with human reproductions.It is also important to explore the effect on the number of piglets born alive(NBA).Here,1017 sows were used to investigate the association between polymorphisms in mitochondrial tRNA genes and NBA.Results: In total,16 mutations were found in mitochondrial tRNA genes,of which 13 mutations were significantly associated with NBA(P < 0.05).The reproductions of mutant carriers were significantly greater than that of wild carriers by 0.989 piglets born alive/sow farrowing.To test whether the mutations altered the structure of mitochondrial tRNAs,the secondary and tertiary structures were predicted.In result,C2255 T changed the secondary structure of t RNA-Val by elongating the T stem and shrinking the T loop,and C2255 T and G2259 A in the tRNA-Val gene,C6217 T and T6219 C in the tRNA-Ala gene,and T15283 C in the tRNA-Glu gene altered the tertiary structure of their tRNAs,respectively by changing the folding form of the T arm,and C16487 T in the tRNA-Thr gene changed the tertiary structure of mitochondrial tRNA-Thr by influencing the folding form of the acceptor arm.Conclusions: Results highlight the effect of mitochondrial tRNA genes on the number of piglets born alive,and suggest that polymorphic sites of the tRNA genes be genetic markers for selection of pig reproduction.
文摘本研究旨在挖掘影响蕨麻猪总产仔数(Total number born,TNB)和产活仔数(Number born alive,NBA)的候选基因,为蕨麻猪高繁殖力基因组选育提供参考数据。采集140头蕨麻猪耳组织样品,提取DNA,利用50K液相芯片进行SNPs检测。分别采用广义线性模型和混合线性模型对140头蕨麻猪个体的SNPs与TNB和NBA进行全基因组关联分析(Genome-wide association studies,GWAS),筛选影响该群体繁殖性状的候选基因。结果显示:针对TNB和NBA等2个性状,广义线性模型分别检测到14个和1个显著的SNPs位点。混合线性模型检测到TNB有2个显著的SNPs位点;未检测到显著影响NBA的SNP。筛选ZCCHC24、ENSSSCG00000046125和TENM1作为影响TNB的重要候选基因,ZCCHC24作为影响NBA的重要候选基因。
