Chines Journal of Vector Biology and Control ›› 2019, Vol. 30 ›› Issue (6): 621-625.DOI: 10.11853/j.issn.1003.8280.2019.06.006

• Original Reports • Previous Articles     Next Articles

Whole-genome characterization of imported Chikungunya virus in Quzhou, Zhejiang province, China, 2017

WANG Xiao-guang1, YANG Rui-jun2, HUANG Shi-teng2, CAO Guo-ping2, LEI Yong-liang1, YE Ling1   

  1. 1 Lishui Center for Disease Control and Prevention, Lishui 323000, Zhejiang Province, China;
    2 Quzhou Center for Disease Control and Prevention
  • Received:2019-03-07 Online:2019-12-20 Published:2019-12-20
  • Supported by:
    Supported by the Medicine and Health Science and Technology Plan Project of Zhejiang Province (No. 2019KY237)


王晓光1, 杨瑞军2, 黄世腾2, 曹国平2, 雷永良1, 叶灵1   

  1. 1 丽水市疾病预防控制中心微生物检验科, 浙江 丽水 323000;
    2 衢州市疾病预防控制中心, 浙江 衢州 324000
  • 通讯作者: 叶灵,
  • 作者简介:王晓光,男,硕士,副主任技师,主要从事病原生物学研究工作,;杨瑞军,男,副主任技师,主要从事病毒检测工作,
  • 基金资助:

Abstract: Objective To perform whole-genome sequencing and phylogenetic analyses of Chikungunya virus (CHIKV) from the serum sample of a febrile patient who had traveled to Bangladesh in Quzhou, 2017. Methods Blood samples were collected aseptically from the patient. The serum was separated for detection of nucleic acids of CHIKV and Dengue virus by RT-PCR. The genome-wide target gene fragments of CHIKV were amplified by RT-PCR and then sequenced. The whole-genome sequence was analyzed by bioinformatic programs:Contig Express, SeqMan, Clustalx V2.0, BioEdit V7.0, GENEDO and MEGA X. Results The patient's serum was positive for CHIKV nucleic acids. The sequencing data were assembled to obtain the whole-genome sequence of CHIKV strain QZ0823, containing 11 787 bp nucleotides. No mutation was found in major structural sites of non-structural proteins. For structural proteins, E1 lacked the adaptive mutation A226V; E2 lacked the new substitution mutation K252Q that might affect the neurovirulence of CHIKV; there were no Aedes aegypti adaptive mutations E1:K211E or E2:V264A. The whole genome-based phylogenetic analysis showed that QZ0823 was tightly clustered with the epidemic strains in Bangladesh, India, and Pakistan, suggesting a close evolutionary relationship. Conclusion The nucleotide sequences of whole genome and structural genes C-E3-E2-6K-E1 of the imported virus in Quzhou show obvious features of CHIKV. QZ0823 and the epidemic strains in Bangladesh are derived from the Eastern, Central, and Southern African genetic lineage.

Key words: Chikungunya virus, Whole genome, Sequencing, Phylogenetic analysis

摘要: 目的 对衢州市2017年1例曾有孟加拉国旅行史的发热患者血清标本进行基孔肯雅病毒(CHIKV)全基因组序列测定及遗传进化分析。方法 无菌采集患者血液,分离血清后采用实时荧光定量PCR检测CHIKV和登革热病毒核酸,反转录PCR扩增CHIKV全基因组靶向基因片段并测序,采用生物信息学软件(Contig Express、SeqMan、Clustalx V2.0、BioEdit V7.0、GENEDOC和MEGA X)分析全基因序列。结果 患者血清为CHIKV核酸阳性。测序数据拼接处理后获得CHIKV全基因组序列(QZ0823株),包含11 787 bp核苷酸,非结构蛋白主要结构位点未发现变异,结构蛋白缺乏E1中的适应性突变A226V和E2中可能影响CHIKV神经毒力的新取代K252Q突变,不存在增强埃及伊蚊的适应性突变E1:K211E和E2:V264A。全基因组序列进化分析显示,QZ0823与孟加拉国、印度、巴基斯坦流行株彼此紧密聚集,具有密切的进化相关性。结论 衢州市输入性基孔肯雅病毒QZ0823全基因组和结构基因C-E3-E2-6K-E1核苷酸序列均符合CHIKV特征,与孟加拉国流行株同属东中南非洲遗传谱系(ECSA)。

关键词: 基孔肯雅病毒, 全基因组, 序列测定, 进化分析

CLC Number: