不同嫩度徐州牛肌肉转录组比较分析

doi:10.16431/j.cnki.1671-7236.2025.02.003

中国畜牧兽医 ›› 2025, Vol. 52 ›› Issue (2): 522-533.doi: 10.16431/j.cnki.1671-7236.2025.02.003

不同嫩度徐州牛肌肉转录组比较分析

沈阳阳¹, 安振江^1,2, 高林娜^1,3, 夏淑雯¹, 陈坤琳¹, 丁强¹, 高运东⁴, 薛金果⁵, 仲跻峰¹, 王慧利¹

1. 江苏省农业科学院畜牧研究所, 江苏省畜禽精准育种工程研究中心, 农业农村部种养结合重点实验室, 南京 210014;
2. 南京农业大学动物科技学院, 南京 210095;
3. 河北工程大学生命科学与食品工程学院, 邯郸 056038;
4. 山东奥克斯畜牧种业有限公司, 济南 276399;
5. 徐州市动物疫病预防控制中心, 徐州 221151

收稿日期:2024-05-29 出版日期:2025-02-05 发布日期:2025-01-24
通讯作者: 王慧利 E-mail:wanghuili318@163.com
作者简介:沈阳阳，E-mail：sy2azy@163.com。
基金资助:
国家重点研发计划课题“华东珍稀濒危牛种质资源抢救性保护研究”(2021YFD1200404)

Comparative Analysis of Muscle Transcriptome of Xuzhou Cattle with Different Tenderness

SHEN Yangyang¹, AN Zhenjiang^1,2, GAO Linna^1,3, XIA Shuwen¹, CHEN Kunlin¹, DING Qiang¹, GAO Yundong⁴, XUE Jinguo⁵, ZHONG Jifeng¹, WANG Huili¹

1. Institute of Animal Science, Jiangsu Academy of Agricultural Sciences, Jiangsu Province Engineering Research Center of Precision Animal Breeding, Key Laboratory of Planting and Breeding Combination, Ministry of Agriculture and Rural Affairs, Nanjing 210014, China;
2. College of Animal Science and Technology, Nanjing Agricultural University, Nanjing 210095, China;
3. School of Life Sciences and Food Engineering, Hebei University of Engineering, Handan 056038, China;
4. Shandong OX Livestock Breeding Co., Ltd., Jinan 276399, China;
5. Xuzhou Animal Disease Prevention and Control Center, Xuzhou 221151, China

Received:2024-05-29 Online:2025-02-05 Published:2025-01-24

摘要/Abstract

摘要： 【目的】探究徐州牛不同嫩度背最长肌间的基因表达差异，挖掘相关调控基因和信号通路，为进一步研究徐州牛肌肉生长调控的作用机制提供理论依据。【方法】本研究以江苏地方特色牛种——徐州牛为研究对象，屠宰后对背最长肌进行剪切力测定，依据剪切力值大小分为高嫩度组6头(剪切力＜5.5 kg)和低嫩度组4头(剪切力＞7 kg)，并对两组肌肉组织进行转录组测序，对数据进行过滤、质控、比对、定量后使用R语言DEseq2包筛选差异表达基因并进行功能富集分析。对差异极显著基因胱抑素B(cystatin B，CSTB)进行物种相似性比对及蛋白理化性质等分析。【结果】 ①转录组结果显示，相对于低嫩度组，高嫩度组中有94个基因上调、37个基因下调，位于前二十的差异表达基因包括CSTB、VWF、DIRAS3、CDKN1A、CFB等。②GO和KEGG富集分析发现，差异表达基因主要涉及凝血、免疫效应、伤口愈合等生物学过程，以及参与脂质代谢的Wnt信号通路等。基因通路网络分析发现，生物过程和分子功能中共同存在CSTB、PRKG1、PLAUR等差异表达基因。③牛CSTB基因与羊的相似性最高，为97.96%，其次是猪；蛋白理化性质发现，CSTB含有98个氨基酸残基，不稳定系数为33.17(＜40)，为稳定蛋白；蛋白二级结构预测显示，CSTB主要是由延伸链和无规则卷曲构成；STRING在线数据库分析结果显示，CSTB可能与CTSH、WC1-10、CTSB等存在相互作用。【结论】本研究筛选出影响徐州牛肌肉不同嫩度的差异表达基因CSTB、VWF、DIRAS3、CDKN1A、CFB等。研究结果可为牛肉品质研究提供理论依据和数据支撑。

关键词: 徐州牛; 背最长肌; 转录组测序; 肌肉嫩度

Abstract: 【Objective】 The gene expression differences of longissimus dorsi muscles with different tenderness in Xuzhou cattle were explored to identify the relevant regulatory genes and signaling pathways,providing a theoretical basis for further research on the mechanisms of muscle growth regulation in Xuzhou cattle. 【Method】 This study focused on a distinctive local cattle breed from Jiangsu,known as Xuzhou cattle.After slaughter,the longissimus dorsi muscle was assessed for shear force,dividing the samples into a high-tenderness group (n=6,shear force ＜5.5 kg) and a low-tenderness group (n=4,shear force＞7 kg).Transcriptome sequencing was conducted on muscle tissues from both groups.After filtering,quality control,alignment,and quantification of the sequencing data,differentially expressed genes were identified using the DESeq2 package in R language.Functional enrichment analysis was subsequently performed.Lastly,significantly differentially expressed genes,particularly cystatin B (CSTB),were analyzed for species homology,protein physicochemical properties,and other functional characteristics. 【Result】 ① Transcriptome analysis revealed that compared with the low-tenderness group,94 genes were up-regulated and 37 genes were down-regulated in the high-tenderness group.The top 20 differentially expressed genes included CSTB,VWF,DIRAS3,CDKN1A, CFB, etc. ② GO and KEGG enrichment analysis indicated that these differentially expressed genes were primarily involved in biological processes such as coagulation,immune response,wound healing,and the Wnt signaling pathway related to lipid metabolism.Gene pathway network analysis highlighted that CSTB,PRKG1,and PLAUR were among the differentially expressed genes shared across biological processes and molecular functions.③ The homology analysis of CSTB gene of cattle showed the highest similarity with Ovis aries at 97.96%,followed by Sus scrofa.The protein physicochemical properties analysis indicated that CSTB consists of 98 amino acid residues,with an instability index of 33.17 (＜40),suggesting that it was a stable protein.The prediction of protein secondary structure showed that CSTB was mainly composed of extended chain and random coil.STRING database analysis suggested potential interactions between CSTB and CTSH,WC1-10,and CTSB. 【Conclusion】 In this study,differentially expressed genes influencing the varying tenderness of Xuzhou cattle muscle were identified,including CSTB,VWF,DIRAS3,CDKN1A,and CFB.The results provide a theoretical basis and data support for beef quality research.

Key words: Xuzhou cattle; longissimus dorsi muscle; RNA-Seq; muscle tenderness

中图分类号:

S823.8⁺1

沈阳阳, 安振江, 高林娜, 夏淑雯, 陈坤琳, 丁强, 高运东, 薛金果, 仲跻峰, 王慧利. 不同嫩度徐州牛肌肉转录组比较分析[J]. 中国畜牧兽医, 2025, 52(2): 522-533.

SHEN Yangyang, AN Zhenjiang, GAO Linna, XIA Shuwen, CHEN Kunlin, DING Qiang, GAO Yundong, XUE Jinguo, ZHONG Jifeng, WANG Huili. Comparative Analysis of Muscle Transcriptome of Xuzhou Cattle with Different Tenderness[J]. China Animal Husbandry and Veterinary Medicine, 2025, 52(2): 522-533.

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不同嫩度徐州牛肌肉转录组比较分析

Comparative Analysis of Muscle Transcriptome of Xuzhou Cattle with Different Tenderness

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