Genetic Variability and Linkage Disequilibrium Patterns in the Bovine DNAJA1 Gene
Genetic Variability and Linkage Disequilibrium Patterns in the Bovine DNAJA1 Gene
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DOI：
10.1007/s12033-009-9228-y
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发表时间：
2010-03-01
影响因子：
2.6
通讯作者：
Rocha, Dominique
中科院分区：
文献类型：
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作者：
Marty, Amandine;Amigues, Yves;Rocha, Dominique
最近在Charolais longissimus thoracis肌肉样本中发现了牛DNAJA 1基因的表达水平与肉嫩度之间的相关性，表明该基因可能在肉嫩度中发挥重要作用。在这里，我们报告的验证内的牛DNAJA 1基因的多态性，和单倍型的变异性和程度的连锁不平衡在三个主要的法国牛肉品种（金发德阿基坦，夏洛来，利木赞）。对18个SNPs进行基因分型，发现16个SNPs在供试品种中具有多态性。两个SNP从进一步分析中去除，因为一个SNP具有低基因分型调用率，而另一个SNP不处于Hardy-Weinberg平衡。其余14个SNP的杂合性程度不同品种之间，夏洛来是最高的遗传变异和金发碧眼的阿基坦最低的品种。DNAJA 1的连锁不平衡和单倍型结构在品种间存在差异。发现了18种不同的单倍型，包括所有品种共有的三种，两到三个标签SNP（取决于品种）足以捕获这些单倍型中看到的所有遗传变异。这项研究的结果将有助于设计最佳的未来关联研究评估的作用DNAJA 1基因在肉嫩度。
Correlation between expression level of the bovine DNAJA1 gene and meat tenderness was recently found in Charolais longissimus thoracis muscle samples, suggesting that this gene could play an important role in meat tenderness. Here, we report the validation of polymorphisms within the bovine DNAJA1 gene, and the haplotype variability and extent of linkage disequilibrium in the three main French beef breeds (Blonde d'Aquitaine, Charolais, Limousin). Genotyping 18 putative SNPs revealed that 16 SNPs were polymorphic within the breeds tested. Two SNPs were removed from further analyses as one SNP had a low genotyping call rate, while the other SNP was not in Hardy-Weinberg equilibrium. The degree of heterozygosity observed for the remaining 14 SNPs varied between breeds, with Charolais being the breed with the highest genetic variation and Blonde d'Aquitaine the lowest. Linkage disequilibrium and haplotype structure of DNAJA1 were different between breeds. Eighteen different haplotypes, including three shared by all breeds, were discovered, and two to three tag SNPs (depending on the breed) are sufficient to capture all the genetic variability seen in these haplotypes. The results of this study will facilitate the design of optimal future association studies evaluating the role of the DNAJA1 gene in meat tenderness.