苏州市一起聚集性人感染柯萨奇病毒A组4型基因特征

董泽丰; 徐智慧; 王笛; 吴学飞; 雅雪蓉; 夏瑜; 沈强

doi:10.16462/j.cnki.zhjbkz.2023.03.021

苏州市一起聚集性人感染柯萨奇病毒A组4型基因特征

doi: 10.16462/j.cnki.zhjbkz.2023.03.021

215004 苏州，苏州市疾病预防控制中心病原微生物检验科

基金项目:

苏州市重大疾病、传染病预防和控制关键技术 GWZX202202

苏州市重大疾病、传染病预防和控制关键技术 GWZX202002

苏州市医学重点学科 SZXK202117

苏州市卫生青年骨干人才“全国导师制”培训项目 QNGG2022030

苏州市姑苏卫生人才计划培养项目 GSWS202099

详细信息

通讯作者:
沈强，E-mail: yanhuahuo110@163.com

中图分类号: R115
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出版历程
- 收稿日期: 2021-05-12
- 修回日期: 2021-08-17
- 网络出版日期: 2023-04-04
- 刊出日期: 2023-03-10

Genetic characteristics of coxsackie A4 virus in a cluster of human infections in Suzhou

Laboratory of Pathogenic Microbiology, Suzhou Center for Disease Control and Prevention, Suzhou 215004, China

Funds:

Suzhou Key Technologies for the Prevention and Control of Major and Infectious Diseases GWZX202202

Suzhou Key Technologies for the Prevention and Control of Major and Infectious Diseases GWZX202002

The Key Medical Discipline of Suzhou SZXK202117

"National Tutorial System" Training Project for Young Health Backbone Talents in Suzhou QNGG2022030

Health Talents Training Project GSWS202099

More Information

Corresponding author: SHEN Qiang, E-mail: yanhuahuo110@163.com

摘要

摘要: 目的对苏州市一起人呼吸道感染不明病原的聚集性疫情病例咽拭子样本进行初步病原分子鉴定，为疫情处置提供技术支撑。方法采集该起疫情病例咽拭子标本，实时荧光定量逆转录聚合酶链反应(Real-time reverse transcription polymerase chain reaction, Real-time RT-PCR)方法检测可引起聚集性呼吸道感染疫情的常见病原(甲/乙型流感病毒、副流感病毒、呼吸道合胞病毒、冠状病毒、鼻病毒、偏肺病毒和腺病毒)核酸，同时采用FilmArray全自动医用PCR分析系统进行多病原筛查。对病例咽拭子标本进行高通量测序，并用特异性引物探针检测柯萨奇病毒A组4型(coxsackievirus A4, CV-A4)进行验证。结果该起疫情采样送检的18份咽拭子样本经Real-time RT-PCR方法检测，其中14份样本柯萨奇A4型病毒检测阳性。Real-time RT-PCR和高通量基因测序方法在病例咽拭子标本中均检出柯萨奇A4型病毒特异性基因片段。序列分析表明苏州该起疫情病毒株全基因组序列与NCBI数据库的MN964082病毒核酸一致性最高，为98.11%；VP1蛋白氨基酸序列与原型株AY421762一致性为98.03%，发现6个位点突变(T23V、A34T、S102A、A200T、I262V和Y285H)。结论 CV-A4可引起聚集性呼吸道感染疫情，对学龄儿童等免疫力较弱的人群应加强健康监测以便疫情早期处置。
- 实时荧光定量逆转录聚合酶链反应 /
- 突变 /
- 基因测序 /
- 柯萨奇病毒A组4型
Abstract: Objective This study aimed to conduct a preliminary molecular identification of pathogens in throat swab samples from a cluster of of cases with unexplained respiratory infections in Suzhou City. Methods Throat swab specimens of the outbreak cases were collected, and Real-time reverse transcription polymerase chain reaction (Real-time RT-PCR) method was employed to detect nucleic acid of common pathogens (influenza A/B viruses, parainfluenza viruses, respiratory syncytial viruses, coronaviruses, rhinoviruses, metapneumoviruses and adenoviruses) for clustered respiratory infections. Concurrently, FilmArray automatic medical PCR analysis system was used for multi-pathogen screening. High-throughput sequencing was performed on the throat swab specimens. And the sequenced results were verified by using specific kit to detect coxsackievirus A4 (CV-A4). Results Among the 18 throat swab samples submitted for testing during this outbreak, 4 were positive for CV-A4 by Real-time RT-PCR. CV-A4 specific gene fragments were identified in the throat swab samples via both Real-time RT-PCR and high-throughput sequencing method. Sequence analysis indicated that the complete genome sequence of the virus strain involved in this outbreak in Suzhou City shared the highest similarity (98.11%) to the MN964082 viral nucleic acid in the NCBI database. The VP1 protein amino acid sequence demonstrated a 98.03% similarity to the prototype strain AY421762. Six mutation sites were identified (T23V, A34T, S102A, A200T, I262V, and Y285H) when compared to AY421762. Conclusions CV-A4 has the potential to cause clustered respiratory infections. Enhanced health monitoring is necessary for vulnerable groups, particularly school-aged children, to facilitate prompt detection and management of such outbreaks.
- Real-time reverse transcription polymerase chain reaction /
- Mutation /
- Gene sequencing /
- Coxsackievirus A4

HTML全文

图 1 CV-A4 VP1基因序列Neighbor-joining进化树

Figure 1. Neighbor-joining tree of VP1 gene sequences of CV-A4

下载: 全尺寸图片幻灯片

图 2 CV-A4 VP1基因序列Neighbor-joining进化树

Figure 2. Neighbor-joining tree of VP1 gene sequences of CV-A4

下载: 全尺寸图片幻灯片

表 1 苏州市CV-A4/Suzhou/A15/2020病毒株核苷酸及编码的氨基酸与参考序列一致性比对结果

Table 1. Comparison results of nucleotide and amino acid identities of CV-A4/Suzhou/A15/2020 sequence and the CV-A4 reference strains

基因区段	AY421762参考株		MN964082参考株
基因区段	核酸一致性(%)	氨基酸一致性(%)	核酸一致性(%)	氨基酸一致性(%)
VP4	86.47	97.10	97.58	100.00
VP2	84.64	98.83	98.70	100.00
VP3	85.83	98.75	97.78	99.17
VP1	83.83	98.03	98.03	99.67
2A	80.22	94.67	97.73	98.67
2B	80.81	96.97	98.65	98.99
2C	83.79	97.57	97.67	99.70
3A	85.66	98.84	97.29	100.00
3B	83.33	90.91	100.00	100.00
3C	83.28	96.32	98.71	99.61
3D	86.89	68.22	97.69	95.35

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