Genetic characteristics of VP1 region of coxsackievirus A10 strains isolated from hand foot and ;mouth disease patients in Ningxia Hui Autonomous Region,2013 / 中华流行病学杂志

ABSTRACT

Objective To study the genetic characteristics of VP1 region of coxsackievirus A10(Cox A10) strains isolated from hand foot and mouth disease (HFMD) cases in Ningxia Hui Autonomous Region(Ningxia)in 2013. Methods A total of 280 specimens,which were identified as non-enterovirus 71 and non-Cox A16 by real-time PCR,were collected and cultured by using RD cell,and the VP1 genes of isolated strains were amplified by using reverse transcriptase PCR (RT-PCR) with degenerated primers and sequenced. The sequencing results were aligned with the sequences in GenBank with BLAST algorithm to identify the virus genotypes. Homologous comparison and phylogenetic analysis were conducted for all the Cox A10 strains identified. Results Among 36 virus strains isolated from 280 clinical specimens,6 were identified as Cox A10. The homologies of nucleotide and amino acid of the Cox A10 strains isolated in Ningxia were 97.0%-99.8% and 99.0%-99.7% respectively,and the Cox A10 strains isolated in Ningxia shared 76.3%-77.2%,81.6%-83.1%,94.4%-98.9% and 80.0%- 82.3% nucleotide homologies respectively and shared 92.3%-93.0%,94.0%-95.3%,98.0%-99.7% and 90.6%-94.0% amino acid homologies respectively with the representative strains of A,B,C and D genotypes. Phylogenetic tree analysis revealed that Cox A10 strains isolated in Ningxia belonged to genotype C. Conclusion Cox A10 is one of the most common pathogen causing HFMD in Ningxia in 2013. All the Cox A10 stains isolated from HFMD patients in Ningxia belonged to genotype C.