摘要
目的了解青岛地区流行的柯萨奇病毒A4型(CVA4)的全基因组特征。方法选取2013—2015年间青岛地区流行的4株CVA4病毒,通过一步法RT-PCR对毒株进行全基因组扩增,采用MEGA7.0软件进行序列比对及系统进化分析,采用similarity plots 3.5.1软件进行基因重组分析。结果进化分析显示:在全基因组、P1区、P2区及P3区系统进化树上:毒株HS312/QD/CHN/2013和HS605/QD/CHN/2014与国内早期分离株共处同一分支;毒株FY218/QD/CHN/2015与2013年江苏温州分离株CV-A4/P1033/2013/China一起在各基因进化树上形成一独立分支;毒株HS144/QD/CHN/2014在P1区进化树上与HS312/QD/CHN/2014、HS605/QD/CHN/2014及国内早期分离株共处同一分支,但在全基因组、P2区及P3区进化树上各形成单一分支。重组分析提示:毒株HS144/QD/CHN/2014与2013年大陆流行的CVA2型毒株CV-A2/P373/2013/China在2C区~3D区间(5081~7301)发生基因重组;毒株FY218/QD/CHN/2015与毒株CV-A4/P1033/2013/China同源,都与CVA2型分离株CV-A2/P373/2013/China在2A区~2B区间(3821~4161)发生基因重组。结论青岛地区流行的CVA4在全基因组层面有明显的遗传多样性。
Objective To investigate the whole genome characteristics of coxsackievirus A4(CVA4)circulating in Qingdao city.Methods Four CVA4 isolates circulating in Qingdao city during 2013 to 2015 were selected.Whole genome sequences of these strains were amplified by one-step reverse transcription-polymerase chain reaction(RT-PCR).Sequence alignment and phylogenetic analysis were performed using MEGA7.0 software package.Genetic recombination analysis was performed using similarity plots 3.5.1 software package.Results Phylogenetic analysis showed that based on the sequences of the whole genome and P1,P2 and P3 regions,HS312/QD/CHN/2013 and HS605/QD/CHN/2014 strains together with the early domestic isolates belonged to the same clade,while FY218/QD/CHN/2015 strain and CV-A4/P1033/2013/China strain collected in Wenzhou in 2013 formed another clade in each phylogenetic tree.HS144/QD/CHN/2014 strain belonged to the same clade as HS312/QD/CHN/2014,HS605/QD/CHN/2014 and the early domestic CVA4 isolates in the phylogenetic tree based on the P1 region,but formed a separate clade in the phylogenetic trees based on the whole genome,P2 region and P3 region.Genetic recombination analysis revealed that there was genetic recombination between HS144/QD/CHN/2014 strain and the CVA2 strain of CV-A2/P373/2013/China isolated in China's Mainland in 2013 in the region of 2C-3D(5081-7301);FY218/QD/CHN/2015 and CV-A4/P1033/2013/China strains were highly homologous and recombination signal sequences were detected in the region of 2A-2B(3821-4161)between the two strains and the CVA2 strain of CV-A2/P373/2013/China.Conclusions The CVA4 isolates circulating in Qingdao city presented obvious genetic diversity at the genome-wide level.
作者
王伟栋
贾光
宫金伶
柴青
苏志磊
张凤
史晓燕
汪照国
Wang Weidong;Jia Guang;Gong Jinling;Chai Qing;Su Zhilei;Zhang Feng;Shi Xiaoyan;Wang Zhaoguo(Department of Microorganism Test,Qingdao Institute of Preventive Medicine,Qingdao Municipal Center for Disease Control and Prevention,Qingdao 266033,China)
出处
《中华微生物学和免疫学杂志》
CAS
CSCD
北大核心
2021年第1期50-55,共6页
Chinese Journal of Microbiology and Immunology
基金
青岛市科技局项目(13-1-3-64-nsh)。
关键词
手足口病
柯萨奇病毒A4型
系统发育
基因重组
Hand,foot and mouth disease
Coxsackievirus A4
Phylogenetic analysis
Genetic recombination
