Genome-wide analysis of a Coxsackievirus A8 isolate in Yunnan Province

VernacularTitle:云南省1株柯萨奇病毒A组8型分离株全基因组分析
Author: GUO Wei
Publication Type:Journal Article
Keywords: Coxsackievirus A8(CVA8); Whole genome sequencing; Recombination analysis
From: Chinese Journal of Biologicals 2024;37(5):537-543
CountryChina
Language:Chinese
Abstract: Objective To analyze the whole genome sequence and genetic characteristics of the Yunnan isolate of Coxsackievirus 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 sequenced,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 was7 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.