云南省1株柯萨奇病毒A组8型分离株全基因组分析
Genome-wide analysis of a Coxsackievirus A8 isolate in Yunnan Province
郭伟 1刘煜菡 1张名 1冯昌增 1许丹菡 1何秀莲 1范胜涛 1马绍辉1
作者信息
- 1. 中国医学科学院 北京协和医学院 医学生物学研究所云南省重大传染病疫苗研发重点实验室,云南昆明 650118
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摘要
目的 分析柯萨奇病毒A组8型(Coxsackievirus A8,CVA8)云南分离株A8-1/YN/CHN/2019全基因组序列及其遗传特性,以期了解CVA8的流行和变异情况.方法 设计针对CVA8的引物,提取病毒RNA,RT-PCR扩增VP1序列并测序,BioEdit 7.2.3拼接得到全基因组,使用MEGA 7.0软件进行系统进化分析,应用Simplot 3.5.1及RDP4软件进行重组分析.结果 A8-1/YN/CHN/2019株长7 396 nt,编码2 188个氨基酸.其VP1与CVA8原型株AF081299/Donovan/USA/1998核苷酸和氨基酸序列的同源性分别为81.04％和95.24％;A8-1/YN/CHN/2019株属于基因型E,其他中国分离株位于D和E型.重组分析发现A8-1/YN/CHN/2019株在非结构编码区的P2和P3段上发生重组.结论 A8-1/YN/CHN/2019株为E基因型,并在P2、P3段的非结构区发生了重组事件.
Abstract
Objective To analyze the whole genome sequence and genetic characteristics of the Yunnan isolate of Coxsacki-evirus A8(CVA8),A8-1/YN/CHN/2019,in order to understand the prevalence and variation of CVA8.Methods The primers for CVA8 were designed,the viral RNA was extracted,the VP1 sequence was amplified by RT-PCR and seque-nced,and the whole genome was spliced using BioEdit 7.2.3.MEGA 7.0 software was used for the phylogenetic analysis,and Simplot 3.5.1 and RDP4 software were used for the recombination analysis.Results Strain A8-1/YN/CHN/2019 was 7 396 nt long and encoded 2 188 amino acids.The homologies of nucleotide and amino acid sequences between VP1 and CVA8 prototype strain AF081299/Donovan/USA/1998 were 81.04％and 95.24％,respectively.Strain A8-1/YN/CHN/2019 belonged to genotype E,while the other Chinese isolates were located in genotypes D and E.Recombination analysis revealed that strain A8-1/YN/CHN/2019 recombined on segments P2 and P3 of the non-structural coding region.Conclusion Strain A8-1/YN/CHN/2019 is of genotype E and has recombination events in the non-structural regions of the P2 and P3 segments.
关键词
柯萨奇病毒A组8型/全基因组测序/重组分析Key words
Coxsackievirus A8(CVA8)/Whole genome sequencing/Recombination analysis引用本文复制引用
基金项目
云南省科技重大专项(202202AA100016)
云南省创新团队项目(202105AE160020)
云南省基础研究计划面上项目(2019FB101)
出版年
2024
NETL
NSTL
万方数据