单核苷酸多态性与核心基因组多位点序列分型技术在宋内志贺菌暴发疫情调查中的应用研究  

Application of wgSNP and cgMLST sequence analysis technology in the investigation of Shigella sonnei outbreak

作　　者：郝潇 赵嘉咏[2] 宋威蓉 胡赢心 穆玉姣[2] HAO Xiao;ZHAO Jiayong;SONG Weirong;HU Yingxin;MU Yujiao(Henan Medical College,Xinzheng,Henan 451100,China;Henan Center for Disease Control and Prevention)

机构地区：[1]河南医学高等专科学校,河南新郑451100 [2]河南省疾病预防控制中心

出　　处：《现代疾病预防控制》2024年第12期940-943,共4页MODERN DISEASE CONTROL AND PREVENTION

摘　　要：目的对宋内志贺菌暴发菌株的全基因组聚类特征进行比较分析,为全基因组比对溯源分析算法的建立和优化提供参考。方法选取2017年8月河南省某寄宿制初中食物中毒事件中的17例腹泻病例,每个病例采集粪便拭子1份,提取细菌DNA进行全基因组测序,测序数据经质控过滤、拼接组装后进行全基因组单核苷酸多态性(wgSNP)和核心基因组多位点序列分型(cgMLST)分析。结果经分离培养、系统生化鉴定和血清学分型,共鉴定出17株宋内志贺菌。wgSNP分析将17株宋内志贺菌分为3个主要分枝,分枝3内对应病例的分枝事件频度和时空跨度都较大。cg MLST分析将17株宋内志贺菌暴发菌株归为同一分枝。结论wgSNP与cgMLST测序分析技术各有优劣,可以为肠道腹泻传染病日常监测和暴发控制提供参考依据。Objective To provide references for the establishment and optimization of whole-genome comparison and traceability analysis algorithms through comparing and analyzing the whole-genome clustering characteristics of Shigella sonnei outbreak strains.Methods Seventeen diarrhea cases of food poisoning events occuring in a boarding middle school of Henan Province in August 2017 were choosed,and one fecal swab from each case was collected.The bacterial DNA was extracted for whole-genome sequencing,and the analysis of whole-genome single-nucleotide polymorphism(wgSNP)and core genome multi-locus sequence typing(cgMLST)was performed after quality control filtering and assembly of sequencing data.Results After isolation and culture,systematic biochemical identification and serological typing,a total of 17 strains of Shigella sonnei were identified.Based on wgSNP analysis results the 17 Shigella sonnei strains were divided into 3 main branches,and the frequency and spatial-temporal span of the branching events corresponding to the cases in branch 3 were relatively large.Based on cgMLST analysis results,the 17 Shigella sonnei outbreak strains were classified into the same branch.Conclusions WgSNP and cgMLST sequencing analysis techniques have their own advantages and disadvantages,which can provide reference for daily monitoring and outbreak control of intestinal diarrhea infectious diseases.

关 键 词：宋内志贺菌 全基因组 暴发 单核苷酸多态性 核心基因组多位点序列分型 

分 类 号：R516.4[医药卫生—内科学]