一株柯萨奇病毒A组4型云南株的全基因组分析

Whole genome analysis of a Coxsackievirus A4 strain from Yunnan

摘要:

目的 了解中国云南2022年分离到的一株柯萨奇病毒A组4型(Coxsackievirus A4, CVA4)病毒株的全基因组序列特征,探讨CVA4系统发育特征。方法 对CVA4分离株194R3/YN/CHN/2022进行全基因组序列扩增测序,并应用Mega 7.0、Geneious 9.1.4及Simplot 3.5.1等软件拼接比对,构建CVA4分离株系统进化树,分析其全基因组序列特征。结果 194R3/YN/CHN/2022分离株为CVA4,属于C2基因亚型,与我国近年的优势基因亚型一致。重组分析显示,在P2、P3非结构编码区,CVA4病毒分离株可能与EVA114原型株V13-0285、CVA16原型株G-10、CVA14原型株G-14发生过重组。结论 云南分离的194R3/YN/CHN/2022属于CVA4中国流行的C2基因亚型,但发生了一定变异。

Abstract:

Objective To understand the whole genome sequence characteristics of a Coxsackievirus A4 (CVA4) isolated from Yunnan, China in 2022, and explore the phylogenetic characteristics of CVA4. Methods The whole genome sequence of CVA4 isolate 194R3/YN/CHN/2022 was amplified and sequenced, and the phylogenetic tree of CVA4 isolate was constructed by using Mega 7.0, Geneious 9.1.4 and Simplot 3.5.1 softwares. The whole genome sequence characteristics were analyzed. Results The 194R3/YN/CHN/2022 isolate was identified as CVA4, belonging to the C2 gene subtype, which was consistent with the dominant gene subtype in recent years in China. Recombination analysis showed that recombination of CVA4 virus isolate with EVA114 prototype (V13-0285), CVA16 prototype (G-10), and CVA14 prototype (G-14) at the non-structural coding regions of P2 and P3 may have occurred. Conclusion The 194R3/YN/CHN/2022 isolated from Yunnan belongs to the C2 gene subtype, which is the prevalent CVA4 in China, but with certain mutations.