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