Genome-Wide Association Analysis of Muscle pH in Texel Sheep × Altay Sheep F(2) Resource Population.
Genome-Wide Association Analysis of Muscle pH in Texel Sheep × Altay Sheep F(2) Resource Population.
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Texel绵羊×Altay绵羊F（2）资源人群中肌肉pH的全基因组pH分析。
DOI：
10.3390/ani13132162
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发表时间：
2023-06-30
期刊：
影响因子：
--
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中科院分区：
文献类型：
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pH值是影响肉品贮藏/货架期的主要因素之一，也直接关系到肉品的新鲜度、口感和整体品质。为了延长贮藏/货架期，挖掘pH相关的候选基因，为遗传改良提供新的机会。我们通过全基因组关联分析获得了与pH相关的候选基因，为延长肉类贮藏/货架期提供了研究方向。pH值是重要的肉质性状之一，在肉品生产中是影响肉品贮藏/货架期和品质的重要因素。为了找到延长储存/保质期的方法，测定了462只特克塞尔羊×阿勒泰羊F2代个体背最长肌的pH值（45 min、24 h、48 h和72 h），采用Illumina Ovine SNP 600 K BeadChip和全基因组重测序技术进行基因分型，利用全基因组关联分析（GWAS）筛选与羊肉品质性状相关的pH值候选基因和分子标记，并通过Q-Q图检测群体分层效果。结果表明，pH群体分层分析并未发现明显的系统性偏差，也没有明显的群体分层效应。关联分析结果显示，与pH显著相关的28个SNP达到了基因组显著水平。通过基因注释和文献检索，确定与pH 45 min相关的候选基因为CCDC 92基因。与pH 24 h相关的候选基因为KDM 4C、TGFB 2和GOT 2基因。与pH 48 h相关的候选基因为MMP 12和MMP 13基因。与pH 72 h相关的候选基因为HILPDA和FAT 1基因。进一步的生物信息学分析显示，24个基因本体术语和5个信号通路显著富集（p ≤ 0.05）。许多术语和途径与细胞组分、蛋白质修饰过程、蛋白质二聚化活性和水解酶活性有关。这些识别的SNPs和基因可以提供关于肉类和肉类储存/货架期的有用信息，从而延长肉类的储存/货架期和质量。
pH was one of the main factors affecting meat storage/shelf life, and was also directly related to meat freshness, taste and overall quality. To extend storage/shelf life, pH-related candidate genes were mined to provide new opportunities for genetic improvement. We obtained candidate genes related to pH through a genome-wide association analysis to provide research directions for extending meat storage/shelf life. pH was one of the important meat quality traits, which was an important factor affecting the storage/shelf life and quality of meat in meat production. In order to find a way to extend the storage/shelf life, the pH values (pH45min, pH24h, pH48h and pH72h) of the longissimus dorsi muscles in F2 individuals of 462 Texel sheep × Altay sheep were determined, genotyping was performed using Illumina Ovine SNP 600 K BeadChip and whole genome resequencing technology, a genome-wide association analysis (GWAS) was used to screen the candidate genes and molecular markers for pH values related to the quality traits of mutton, and the effects of population stratification were detected by Q–Q plots. The results showed that the pH population stratification analysis did not find significant systemic bias, and there was no obvious population stratification effect. The results of the association analysis showed that 28 SNPs significantly associated with pH reached the level of genomic significance. The candidate gene associated with pH45min was identified as the CCDC92 gene by gene annotation and a search of the literature. Candidate genes related to pH24h were KDM4C, TGFB2 and GOT2 genes. The candidate genes related to pH48h were MMP12 and MMP13 genes. The candidate genes related to pH72h were HILPDA and FAT1 genes. Further bioinformatics analyses showed 24 gene ontology terms and five signaling pathways that were significantly enriched (p ≤ 0.05). Many terms and pathways were related to cellular components, processes of protein modification, the activity of protein dimerization and hydrolase activity. These identified SNPs and genes could provide useful information about meat and the storage/shelf life of meat, thereby extending the storage/shelf life and quality of meat.
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