上海预防医学2025，Vol.37Issue(4)：342-349,8.DOI:10.19428/j.cnki.sjpm.2025.24576
上海市浦东新区腹泻门诊病例肠集聚性大肠埃希菌基因组特征及系统发育分析
Genomic characteristics and phylogenetic analyses of enteroaggregative Escherichia coli infection in diarrhea outpatients in Pudong New Area,Shanghai
摘要
Abstract
[Objective]To investigate the whole genomic characteristics and phylogenetic relationships of clinical isolates of enteroaggregative Escherichia coli(EAEC)in diarrhea outpatients in Pudong New Area,Shanghai.[Methods]Based on the diarrheal disease surveillance network in Pudong New Area,Shanghai,whole-genome sequencing was performed on a total of 55 EAEC strains isolated from fecal samples of the diarrhea outpatients from January 2015 to December 2019.The genome analyses based on raw sequencing data encompassed genome size,coding genes,dispersed repeat sequences,genomic islands,and protein coding regions,and pan-genome analyses were conducted simultaneously.Contigs sequences assays were performed to analyze molecular characteristics including serotypes,antibiotic resistance genes,and virulence factors.The phylogenetic clusters and multilocus sequence typing(MLST)were identified,and a phylogenetic tree was constructed.[Results]EAEC exhibited an open pan-genome.The predominant serotype of EAEC in diarrhea outpatients in Pudong New Area was O130:H27,and the carriage rate of β-lactam resistance genes was the highest(67.27%,37/55).A total of 29 virulence factors and 106 virulence genes were identified,phylogenic group B1 was the predominant group,and clonal group CC31 was the dominant clonal group.The strain distribution was highly heterogeneous.[Conclusion]The genomic characteristics of EAEC displayed significant strain polymorphism.It is necessary to develop effective strategies for differential diagnosis and improve detection capabilities for infection with EAEC of different serotypes and genotypes.关键词
肠集聚性大肠埃希菌/全基因组测序/泛基因组/分子特征/系统进化Key words
enteroaggregative Escherichia coli/whole genome sequencing/pan-genome/molecular characteristic/phylogenetic evolution分类
医药卫生引用本文复制引用
崔琪奇,陆宇辰,吴苏平,张胤雯,赵冰,潘丽峰,郑英杰,郝莉鹏..上海市浦东新区腹泻门诊病例肠集聚性大肠埃希菌基因组特征及系统发育分析[J].上海预防医学,2025,37(4):342-349,8.基金项目
上海市加强公共卫生体系建设三年行动计划(2023-2025年)重点学科(GWVI-11.1-02-传染病学) （2023-2025年）
上海市浦东新区卫生健康委员会青年科技项目(PW2021B-03) （PW2021B-03）
上海市浦东新区疾病预防控制中心(复旦大学浦东预防医学研究院)专项科技项目(YJY-2024-09) （复旦大学浦东预防医学研究院）
