柯萨奇病毒A组16型河南省分离株基因组序列分析

Genomic Characteristics of Coxsakievirus A16 Isolated in Henan Province

为了解河南省手足口病患者标本中分离柯萨奇A组的16型(CoxAl6)病毒基因组特征,对2010年采集的手足口病患者临床标本406份进行RT-PCR扩增和病毒分离鉴定;通过10对引物分段扩增和拼接CoxAl6分离株基因组序列,利用生物信息学软件对序列分析,构建序列遗传发育树。测序获得河南省CoxAl6分离株HN1162/HN/CHN/2010基因组全长序列7 411bp,5′非编码区(5′UTR)、P1、P2、P3、3′非编码区(3′UTR)区域核苷酸序列与GenBank公布的其它分离株相似性分别为87.0%～97.9%、77.0%～95.4%、80.3%～96.9%、77.9%～96.2%、80.5%～100%;VP1区核苷酸相似性为91.4%～96.4%,氨基酸相似性为99.3%～99.7%;遗传发育树分析表明与我国深圳、广州、福建分离株处于同一分支。河南省手足口病患者标本CoxAl6病毒分离株属于C2基因亚型/B-2基因亚型,对加强该病毒变异检测,预防控制手足口病疫情具有重要意义。

To reveal the genomic sequence characteristics of coxsackievirus A16（CoxA16） strain isolated from patients with hand-foot-mouth disease（HFMD） in Henan province.A total of 406 samples were detected by reverse-transcription polymerase chain reaction（RT-PCR） and cell-culture-based isolation of coxsackievirus A16.The whole genome of CoxA16 isolate was amplified using 10 pairs of primers,the sequences were analyzed and phylogenetic tree was generated by bioinformatics software.The full length of HN1162/HN/CHN/2010 genome was 7411bp.Compared with the other CoxA16 strains released in GenBank,the nucleotide similarities were 87.0～97.9%,77.0%～95.4%,80.3%～96.9%,77.9%～96.2%,80.5～100% in 5′UTR,P1,P2,P3,3′UTR region,respectively;The similarities of nucleotide and amino acid sequences in VP1 region were 91.4%～96.4% and 99.3%～99.7%,respectively.Phylogenetic tree analysis showed that CoxA16 strains isolated from Henan,Shenzhen,Guangzhou and Fujian belonged to the same cluster.The newly isolated CoxA16 from Henan province belonged to subgenotype C2/B-2.These results will have great significance in monitoring CoxA16 and for prevention and control of hand-foot-mouth disease.