2008-2022年福建省O1群霍乱弧菌人源株基因组特征研究  

Genomic characteristics of the Vibrio cholerae O1 group isolated from humans in Fujian Province,2008 to 2022

作　　者：柯自立 张小玄 徐海滨[1] 高亚东 罗朝晨[1] 黄梦颖[1] 邱玉锋 杨劲松[1,2] KE Zi-li;ZHANG Xiao-xuan;XU Hai-bin;GAO Ya-dong;LUO Chao-chen;HUANG Meng-ying;QIU Yu-feng;YANG Jin-song(Department for Prevention and Control of Infectious Diseases,Fujian Center for Disease Control and Prevention,Fujian Provincial Key Laboratory of Zoonosis Research,Fuzhou 350012,China;School of Public Health,Fujian Medical University,Fuzhou 350122,China)

机构地区：[1]福建省疾病预防控制中心传染病预防控制所,福建省人兽共患病重点实验室,福州350012 [2]福建医科大学公共卫生学院,福州350122

出　　处：《中国人兽共患病学报》2024年第8期708-715,共8页Chinese Journal of Zoonoses

基　　金：福建省自然科学基金项目(No.2022J01399);福建省卫生健康科技计划项目(No.2021CXA024)联合资助。

摘　　要：目的了解福建省O1群霍乱弧菌人源株基因组特征,为深入开展霍乱分子流行病学研究提供依据。方法收集2008-2022年福建省霍乱病例和带菌者来源O1群霍乱弧菌16株,肉汤稀释法检测抗生素最小抑菌浓度(MIC)。运用二代测序技术得到全基因组序列;利用snippy、Roary、Prokka等开源软件及NCBI、BacWGSTdb等在线分析网站进行核心基因组多位点序列分型(cgMLST)、核心基因组单核苷酸多态性分析(cgSNP)、毒力基因和耐药基因预测、泛基因组多样性的分析。结果福建省霍乱弧菌分为5个ST(sequence type)型别,其中新发现的ST182和ST1480型是当前我国优势克隆群ST75型的进化分支,并与2010年和2013年的台湾株高度同源。产毒株和非产毒株均不同程度地携带各种毒力因子并发生变异;预测出7大类13个耐药基因,其中黏菌素类、四环素类耐药基因携带情况与耐药表型一致。泛基因组学分析发现霍乱弧菌拥有1个开放的泛基因组,Roary聚类分析表现出比cgMLST更高的分辨率。结论福建省O1群霍乱弧菌人源株的基因组结构和功能具有多态性,新发的ST1480型克隆群具有流行潜力,需加强对此类菌株的监测。This study was aimed at understanding the genomic characteristics of the Vibrio cholerae O1 group isolated from humans in Fujian Province,to provide essential data for the molecular epidemiological study of cholera.From 2008 to 2022,16 strains of the V.cholerae O1 group from patients and carriers were collected,and antibiotic sensitivity was determined according to the minimum inhibitory concentration(MIC).The whole genome sequences obtained through second generation sequencing were analyzed in open source software,including snippy,Roary,and Prokka,as well as online analysis websites,including NCBI and BacWGSTdb,for core-genome multilocus sequence typing(cgMLST),core-genome single nucleotide polymorphism analysis(cgSNP),virulence gene analysis,drug resistance gene prediction,and pan-genomic diversity analysis.The whole genome sequences of V.cholerae were divided into five sequence types(STs),among which the newly discovered ST182 and ST1480 were the evolutionary branches of the current dominant clonal group ST75 in China,and were highly related to two strains isolated from Taiwan in 2010 and 2013,respectively.Both toxigenic strains and non-toxigenic strains carried a variety of virulence factors and showed gene variation to varying degrees.Thirteen drug resistance genes in seven categories were predicted,among which the distribution of colistin and tetracycline resistance genes was consistent with the drug resistance phenotype.Pan-genomic analysis indicated that V.cholerae had an open pan-genome,and Roary cluster analysis showed higher resolution than cgMLST.In summary,V.cholerae O1 group isolates from humans in Fujian Province have polymorphisms in genome structure and function,and the newly discovered ST1480 clone group has epidemic potential.Therefore,the monitoring of such strains must be strengthened.

关 键 词：霍乱弧菌 全基因组测序 生物信息学分析 核心基因组多位点序列分型 泛基因组 

分 类 号：R378.3[医药卫生—病原生物学]