Genetic characteristics of the whole genome sequences of coxsackievirus A6 in Anhui Province, 2022-2023
- Author:
YANG Lingkang
;
GE Yinglu
;
LIU Yinuo
- Publication Type:Journal Article
- Keywords:
Hand, foot, and mouth disease;
enterovirus;
coxsackievirus A6;
genetic recombination;
Anhui
- From:
China Tropical Medicine
2025;25(2):176-
- CountryChina
- Language:Chinese
-
Abstract:
Objective This study aimed to investigate the epidemiological characteristics, recombination patterns, and mutation variations of Coxsackievirus A6 (CV-A6) based on whole-genome sequences of CV-A6 collected from Anhui Province from 2022 to 2023, to understand the relationship between recombination and evolution in CV-A6. Methods CV-A6-positive samples collected from different regions of Anhui Province during 2022-2023 were subjected to whole-genome sequencing. Genome sequence alignment, phylogenetic analysis, and similarity analysis were conducted using software tools such as MEGA11, SimPlot, and DNAstar. Amino acid mutation sites in the P1-P3 coding regions were also analyzed. Results A total of 10 CV-A6 isolates were sequenced in this study. The nucleotide and amino acid sequence similarity among the 10 isolates ranged from 94.0% to 99.7% and 98.3% to 99.9%, respectively. Compared with the prototype strain, their nucleotide and amino acid sequence similarity ranged from 79.6% to 80.1% and 94.8% to 95.1%, respectively. The VP1 phylogenetic tree revealed that all 10 isolates belonged to the D3a subtype, consistent with the genotypic trends observed in recent years in China. Recombination analysis showed that the P1 coding region was relatively conserved, whereas certain levels of recombination events occurred between CV-A6 and other enteroviruses in the P2 and P3 coding regions. Recombination evolution analysis of the 3D region indicated that the CV-A6 strains were divided into two recombinant branches, RF-A and RF-K, with 4 isolates classified as RF-A and 6 as RF-K. Amino acid mutation site analysis showed varying degrees of mutations in the P1-P3 regions. Specifically, in the 3D region, RF-A and RF-K recombinant branches displayed different mutation patterns, with 13 unique amino acid mutations observed in the RF-A branch and 6 unique mutations in the RF-K branch. Conclusions The D3a subtype is the predominant epidemic genotype of CV-A6 in Anhui Province during 2022-2023, and no evidence of emergent new sub-genotypes was observed. However, some mutations may have occurred in the 3D region, indicating potential genetic changes.
- Full text:20251117101207877959. Genetic characteristics of the whole genome sequences of coxsackievirus A6 in Anhui Province, 2022-2023.pdf
