在人类唾液中鉴定出具有获得性 blaTEM-1 和高基因型毒力负荷的 73 型大肠埃希菌序列的完整基因组。

IF 3.7 3区医学 Q2 INFECTIOUS DISEASES

Journal of global antimicrobial resistance Pub Date : 2024-09-19 DOI:10.1016/j.jgar.2024.08.011

{"title":"在人类唾液中鉴定出具有获得性 blaTEM-1 和高基因型毒力负荷的 73 型大肠埃希菌序列的完整基因组。","authors":"","doi":"10.1016/j.jgar.2024.08.011","DOIUrl":null,"url":null,"abstract":"<div><h3>Objectives</h3><div><em>Escherichia coli</em> sequence type (ST) 73 is a pandemic lineage of the ExPEC (Extraintestinal Pathogenic <em>E. coli</em>) family associated with conserved virulence. We report the complete genome of a genomically hypervirulent <em>E. coli</em> ST73 strain isolated from the oral cavity of a patient with a diagnosis of treatment resistant schizophrenia and receiving clozapine treatment.</div></div><div><h3>Methods</h3><div><em>E. coli</em> strain GABEEC132 underwent second and third generation sequencing with Illumina and Oxford-Nanopore-Technologies (ONT) platforms. Antibiotic resistance genes (ARGs) and virulence factors (VFs) were bioinformatically identified using the NCBI-AMR-Finder-Plus database and Virulence-Factors-database (VFDB), respectively. To contextualize the genome within a broader epidemiological framework, phylogenetic analysis was conducted using representative genomes of <em>E. coli</em> ST73 O6:H1 (<em>n</em> = 55).</div></div><div><h3>Results</h3><div><em>E. coli</em> strain GABEEC132 was identified as possessing the O6:H1 serotype and classified within the B2 phylogroup. The strain exhibited a high genomic virulence load, encoding for 194 VFs. Additionally, it encoded three ARGs, including an acquired <em>blaTEM-1</em> located on a rep_cluster_2350 8 237 Kb mobilisable plasmid, presenting phenotypic resistance to ampicillin and piperacillin.</div></div><div><h3>Conclusion</h3><div>This report provides novel insights into the oral prevalence of genotypically hypervirulent and drug-resistant <em>E. coli</em> ST73, a pandemic lineage.</div></div>","PeriodicalId":15936,"journal":{"name":"Journal of global antimicrobial resistance","volume":null,"pages":null},"PeriodicalIF":3.7000,"publicationDate":"2024-09-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Complete genome of Escherichia coli sequence type 73 with acquired blaTEM-1 and high genotypic virulence load identified in human saliva\",\"authors\":\"\",\"doi\":\"10.1016/j.jgar.2024.08.011\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<div><h3>Objectives</h3><div><em>Escherichia coli</em> sequence type (ST) 73 is a pandemic lineage of the ExPEC (Extraintestinal Pathogenic <em>E. coli</em>) family associated with conserved virulence. We report the complete genome of a genomically hypervirulent <em>E. coli</em> ST73 strain isolated from the oral cavity of a patient with a diagnosis of treatment resistant schizophrenia and receiving clozapine treatment.</div></div><div><h3>Methods</h3><div><em>E. coli</em> strain GABEEC132 underwent second and third generation sequencing with Illumina and Oxford-Nanopore-Technologies (ONT) platforms. Antibiotic resistance genes (ARGs) and virulence factors (VFs) were bioinformatically identified using the NCBI-AMR-Finder-Plus database and Virulence-Factors-database (VFDB), respectively. To contextualize the genome within a broader epidemiological framework, phylogenetic analysis was conducted using representative genomes of <em>E. coli</em> ST73 O6:H1 (<em>n</em> = 55).</div></div><div><h3>Results</h3><div><em>E. coli</em> strain GABEEC132 was identified as possessing the O6:H1 serotype and classified within the B2 phylogroup. The strain exhibited a high genomic virulence load, encoding for 194 VFs. Additionally, it encoded three ARGs, including an acquired <em>blaTEM-1</em> located on a rep_cluster_2350 8 237 Kb mobilisable plasmid, presenting phenotypic resistance to ampicillin and piperacillin.</div></div><div><h3>Conclusion</h3><div>This report provides novel insights into the oral prevalence of genotypically hypervirulent and drug-resistant <em>E. coli</em> ST73, a pandemic lineage.</div></div>\",\"PeriodicalId\":15936,\"journal\":{\"name\":\"Journal of global antimicrobial resistance\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":3.7000,\"publicationDate\":\"2024-09-19\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Journal of global antimicrobial resistance\",\"FirstCategoryId\":\"3\",\"ListUrlMain\":\"https://www.sciencedirect.com/science/article/pii/S2213716524001693\",\"RegionNum\":3,\"RegionCategory\":\"医学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q2\",\"JCRName\":\"INFECTIOUS DISEASES\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of global antimicrobial resistance","FirstCategoryId":"3","ListUrlMain":"https://www.sciencedirect.com/science/article/pii/S2213716524001693","RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"INFECTIOUS DISEASES","Score":null,"Total":0}

引用次数: 0

摘要

目的：大肠埃希氏菌序列类型（ST）73是ExPEC（肠道外致病性大肠杆菌）家族中的一个大流行菌系，具有保守的毒力。我们报告了从一名被诊断为耐药精神分裂症并接受氯氮平治疗的患者口腔中分离出的一株基因组高病毒性大肠杆菌 ST73 的完整基因组：大肠杆菌 GABEEC132 株通过 Illumina 和 Oxford-Nanopore-Technologies (ONT) 平台进行了第二代和第三代测序。利用 NCBI-AMR-Finder-Plus 数据库和病毒活性因子数据库（VFDB）分别对抗生素耐药基因（ARGs）和病毒活性因子（VFs）进行了生物信息学鉴定。为了将基因组置于更广泛的流行病学框架内，利用大肠杆菌 ST73 O6:H1 的代表性基因组（n=55）进行了系统进化分析：结果：大肠杆菌菌株 GABEEC132 被鉴定为具有 O6:H1 血清型，并被归入 B2 系统群。该菌株表现出较高的基因组毒力负荷，编码 194 个 VFs。此外，它还编码了三个 ARGs，包括位于 rep_cluster_2350 8 237 Kb 可移动质粒上的获得性 blaTEM-1，表现出对氨苄西林和哌拉西林的表型耐药性：本报告为了解大肠杆菌 ST73 这一流行菌系的高病毒性和耐药性基因型的口腔流行情况提供了新的视角。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

查看原文本刊更多论文

Complete genome of Escherichia coli sequence type 73 with acquired blaTEM-1 and high genotypic virulence load identified in human saliva

Objectives

Escherichia coli sequence type (ST) 73 is a pandemic lineage of the ExPEC (Extraintestinal Pathogenic E. coli) family associated with conserved virulence. We report the complete genome of a genomically hypervirulent E. coli ST73 strain isolated from the oral cavity of a patient with a diagnosis of treatment resistant schizophrenia and receiving clozapine treatment.

Methods

E. coli strain GABEEC132 underwent second and third generation sequencing with Illumina and Oxford-Nanopore-Technologies (ONT) platforms. Antibiotic resistance genes (ARGs) and virulence factors (VFs) were bioinformatically identified using the NCBI-AMR-Finder-Plus database and Virulence-Factors-database (VFDB), respectively. To contextualize the genome within a broader epidemiological framework, phylogenetic analysis was conducted using representative genomes of E. coli ST73 O6:H1 (n = 55).

Results

E. coli strain GABEEC132 was identified as possessing the O6:H1 serotype and classified within the B2 phylogroup. The strain exhibited a high genomic virulence load, encoding for 194 VFs. Additionally, it encoded three ARGs, including an acquired blaTEM-1 located on a rep_cluster_2350 8 237 Kb mobilisable plasmid, presenting phenotypic resistance to ampicillin and piperacillin.

Conclusion

This report provides novel insights into the oral prevalence of genotypically hypervirulent and drug-resistant E. coli ST73, a pandemic lineage.

求助全文

通过发布文献求助，成功后即可免费获取论文全文。去求助

来源期刊

Journal of global antimicrobial resistance INFECTIOUS DISEASES-PHARMACOLOGY & PHARMACY

CiteScore

8.70

自引率

2.20%

发文量

285

审稿时长

34 weeks

期刊介绍： The Journal of Global Antimicrobial Resistance (JGAR) is a quarterly online journal run by an international Editorial Board that focuses on the global spread of antibiotic-resistant microbes. JGAR is a dedicated journal for all professionals working in research, health care, the environment and animal infection control, aiming to track the resistance threat worldwide and provides a single voice devoted to antimicrobial resistance (AMR). Featuring peer-reviewed and up to date research articles, reviews, short notes and hot topics JGAR covers the key topics related to antibacterial, antiviral, antifungal and antiparasitic resistance.