Yuan Siyu, Tian Shaoqi, Meng Chuang, Ji Feng, Zhou Bin, Rushdi Hossam E, Ye Manhong
College of Bioscience and Biotechnology, Yangzhou University, Yangzhou 225009, China.
Jiangsu Key Laboratory of Zoonosis, Yangzhou University, Yangzhou 225009, China.
Animals (Basel). 2023 Oct 19;13(20):3256. doi: 10.3390/ani13203256.
The Chinese indigenous Shiqi (SQ) pigeon and the imported White King (WK) pigeon are two meat-type pigeon breeds of economical and nutritional importance in China. They displayed significant differences in such meat quality traits as intramuscular fat (IMF) content and fatty acid (FA) compositions in the breast muscles. In this study, we aimed to screen candidate genes that could affect fat-related meat quality traits in meat-type pigeons. We investigated the polymorphic variations at the genomic level using double-digest restriction-associated DNA (ddRAD) sequencing in 12 squabs of SQ and WK pigeons that exhibited significant inter-breed differences in IMF content as well as FA and amino acid compositions in the breast muscles, and screened candidate genes influencing fat-related traits in squabs through gene ontology analysis and pathway analysis. By focusing on 6019 SNPs, which were located in genes with correct annotations and had the potential to induce changes in the encoded proteins, we identified 19 genes (, , , , , , , , , , , , , , , , , , ) as candidate genes that could affect fat-related traits in squabs. They were significantly enriched in the pathways of FA metabolism, degradation, and biosynthesis ( < 0.05). Results from molecular docking analysis further revealed that three non-synonymous amino acid alterations, ACAA1(S357N), ACAA2(T234I), and ACACB(H1418N), could alter the non-bonding interactions between the enzymatic proteins and their substrates. Since , and encode rate-limiting enzymes in FA synthesis and degradation, alterations in the enzyme-substrate binding affinity may subsequently affect the catalytic efficiency of enzymes. We suggested that SNPs in these three genes were worthy of further investigation into their roles in explaining the disparities in fat-related traits in squabs.
中国本土的石岐（SQ）鸽和引进的白王（WK）鸽是中国具有经济和营养重要性的两个肉鸽品种。它们在肉质性状方面表现出显著差异，如胸肌中的肌内脂肪（IMF）含量和脂肪酸（FA）组成。在本研究中，我们旨在筛选可能影响肉鸽脂肪相关肉质性状的候选基因。我们使用双酶切限制性内切酶相关DNA（ddRAD）测序技术，在12只SQ和WK鸽的乳鸽中研究了基因组水平的多态性变异，这些乳鸽在IMF含量以及胸肌中的FA和氨基酸组成方面表现出显著的品种间差异，并通过基因本体分析和通路分析筛选出影响乳鸽脂肪相关性状的候选基因。通过关注位于具有正确注释且有可能诱导编码蛋白发生变化的基因中的6019个单核苷酸多态性（SNP），我们鉴定出19个基因（，，，，，，，，，，，，，，，，，，）作为可能影响乳鸽脂肪相关性状的候选基因。它们在FA代谢、降解和生物合成途径中显著富集（<0.05）。分子对接分析结果进一步表明，三个非同义氨基酸改变，即ACAA1（S357N）、ACAA2（T234I）和ACACB（H1418N），可能会改变酶蛋白与其底物之间的非键相互作用。由于，和编码FA合成和降解中的限速酶，酶-底物结合亲和力的改变可能随后影响酶的催化效率。我们认为这三个基因中的SNP值得进一步研究它们在解释乳鸽脂肪相关性状差异中的作用。
