[1]杨宣叶,高明阳,胡欣妍,等.BVDV-2d毒株的分离鉴定及同义密码子使用模式分析[J].江苏农业学报,2024,(11):2111-2121.[doi:doi:10.3969/j.issn.1000-4440.2024.11.015]
　YANG Xuanye,GAO Mingyang,HU Xinyan,et al.Isolation, identification and analysis of synonymous codon usage patterns of BVDV-2d strain[J].,2024,(11):2111-2121.[doi:doi:10.3969/j.issn.1000-4440.2024.11.015]
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BVDV-2d毒株的分离鉴定及同义密码子使用模式分析()
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江苏农业学报[ISSN:1006-6977/CN:61-1281/TN]

卷:
期数:
2024年11期
页码:
2111-2121
栏目:
畜牧兽医·水产养殖·益虫饲养
出版日期:
2024-11-30

文章信息/Info

Title:
Isolation, identification and analysis of synonymous codon usage patterns of BVDV-2d strain
作者:
杨宣叶1; 2; 高明阳1; 2; 胡欣妍1; 2; 王进千1; 2; 王慧慧1; 3; 丁玉林4; 曹小安3; 马晓霞1; 2
(1.西北民族大学生物医学研究中心/生物工程与技术国家民委重点实验室，甘肃兰州730030；2.西北民族大学生命科学与工程学院，甘肃兰州730010；3.中国农业科学院兰州兽医研究所动物疫病防控全国重点实验室，甘肃兰州730046；4.内蒙古农业大学兽医学院动物疾病临床诊疗技术重点实验室，内蒙古呼和浩特010018)
Author(s):
YANG Xuanye1; 2; GAO Mingyang1; 2; HU Xinyan1; 2; WANG Jinqian1; 2; WANG Huihui1; 3; DING Yulin4; CAO Xiaoan3; MA Xiaoxia1; 2
(1.Biomedical Research Center/Key Laboratory of Biotechnology and Bioengineering of State Ethnic Affairs Commission, Northwest Minzu University, Lanzhou 730030, China；2.School of Life Sciences and Engineering, Northwest Minzu University, Lanzhou 730010, China；3.State Key Laboratory for Animal Disease Control and Prevention, Lanzhou Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Lanzhou 730046, China；4.Key Laboratory of Clinical Diagnosis and Treatment Technology in Animal Disease, College of Veterinary Medicine, Inner Mongolia Agricultural University, Hohhot 010018, China)
关键词:
牛病毒性腹泻病毒; BVDV-2d; 病理变化; 同义密码子; 遗传
Keywords:
bovine viral diarrhea virus; BVDV-2d; pathological change; synonymous codon; heredity
分类号:
S852.65
DOI:
doi:10.3969/j.issn.1000-4440.2024.11.015
文献标志码:
A
摘要:
本研究通过对腹泻犊牛肠道内容物中分离到的牛病毒性腹泻病毒（BVDV）毒株进行分析，首次确认该毒株为BVDV-2d亚型，命名为22-Gansu-F3。通过病毒分离、鉴定及全基因组测序，本研究不仅探讨了腹泻犊牛肠道的病理变化，还分析了其同义密码子使用模式的遗传特征。结果表明，在开放阅读框中，CpG二核苷酸的使用频率显著降低，并且在选择同义密码子的过程中，精氨酸对含CpG同义密码子的使用具有显著抑制作用。为了进一步明确不同功能性蛋白质编码序列的同义密码子使用模式的遗传学特征，本研究比较了不同编码序列的同义密码子使用差异，发现Npro和NS4A的编码区在同义密码子使用上与其他蛋白质显著不同。此外，BVDV-2d型22-Gansu-F3毒株的不同蛋白质编码区在适应猪、羊和骆驼的同义密码子使用模式上表现出良好的适应性，为这些动物体内病毒蛋白的翻译提供了潜在的物质基础。本研究结果为中国BVDV-2型的进化动态提供了新的理论依据，并为预防该亚型成为中国主要流行亚型提供了早期预警。
Abstract:
This study analyzed a bovine viral diarrhea virus (BVDV) strain isolated from the intestinal contents of diarrheic calves, and classified it as subtype BVDV-2d for the first time and designated it as 22-Gansu-F3. Through viral isolation, identification, and whole-genome sequencing, this study not only explored the pathological changes in the intestines of diarrheic calves, but also analyzed the genetic characteristics of their synonymous codon usage pattern. Our findings revealed a significant reduction in the usage frequency of CpG dinucleotides within open reading frames. Besides, arginine showed notable suppression of synonymous codon usage containing CpG during the selection process for synonymous codon. To elucidate the genetic features of synonymous codon usage patterns among various functional protein-coding sequences, we compared the usage differences of synonymous codons in different coding sequences and found significant differences in the synonymous codon usage of the Npro and NS4A encoding regions compared to other proteins. Furthermore, the different protein-coding regions of the BVDV-2d strain 22-Gansu-F3 exhibited good adaptability for synonymous codon usage pattern in pigs, sheep, and camels, and provided a potential material basis for the translation of viral proteins in these hosts. The research results offer new theoretical insights into the evolutionary dynamics of BVDV subtype 2 in China and serve as an early warning to prevent this subtype from becoming the predominant circulating subtype.

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备注/Memo

备注/Memo:
收稿日期：2024-04-06基金项目：甘肃省自然科学基金项目(23JRRA715)作者简介：杨宣叶(2001-)，男，河南周口人，硕士研究生，主要从事病毒基因工程研究。(E-mail)yangxuanye2001@163.com通讯作者：马晓霞，(E-mail)maxiaoxia956@163.com
更新日期/Last Update: 2025-01-20