2022 年欧洲霍乱病例中霍乱弧菌 O1 分离物的基因组分析。

IF 9.9 2区 医学 Q1 INFECTIOUS DISEASES Eurosurveillance Pub Date : 2024-09-01 DOI:10.2807/1560-7917.ES.2024.29.36.2400069
Caroline Rouard, David R Greig, Thamida Tauhid, Susann Dupke, Elisabeth Njamkepo, Ettore Amato, Boas van der Putten, Umaer Naseer, Marion Blaschitz, Georgia D Mandilara, James Cohen Stuart, Alexander Indra, Harold Noël, Theologia Sideroglou, Florian Heger, Maaike van den Beld, Astrid Louise Wester, Marie-Laure Quilici, Holger C Scholz, Inga Fröding, Claire Jenkins, François-Xavier Weill
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We also studied their virulence, antimicrobial resistance (AMR) determinants and phylogenetic relationships.MethodsWe used microbial genomics to study the 49 <i>V. cholerae</i> O1 isolates recovered from the 51 European cases. We also used > 1,450 publicly available 7PET genomes to provide a global phylogenetic context for these 49 isolates.ResultsAll 46 good-quality genomes obtained belonged to the 7PET lineage. All but two isolates belonged to genomic Wave 3 and were grouped within three sub-lineages, one of which, Pre-AFR15, predominated (34/44). This sub-lineage, corresponding to isolates from several countries in Southern Asia, the Middle East and Eastern or Southern Africa, was probably a major contributor to the global upsurge of cholera cases in 2022. 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引用次数: 0

摘要

背景2022年世界卫生组织(WHO)报告的霍乱病例数是2021年的两倍多。目的我们旨在确认世卫组织欧洲地区国家在2022年报告的霍乱弧菌O1分离株属于第七次大流行El Tor系(7PET)。我们还研究了它们的毒力、抗菌药耐药性(AMR)决定因素和系统发育关系。方法 我们利用微生物基因组学研究了从 51 例欧洲病例中分离出的 49 株 O1 型霍乱弧菌。我们还使用了 > 1,450 个公开可用的 7PET 基因组,为这 49 个分离株提供了全球系统发育背景。除两个分离株外,所有分离株都属于基因组第 3 波,并被归入三个亚系,其中一个亚系(Pre-AFR15)占主导地位(34/44)。该亚系与亚洲南部、中东、非洲东部或南部几个国家的分离物相对应,可能是 2022 年全球霍乱病例激增的主要原因。结论高收入国家的参考实验室应使用全基因组测序技术将霍乱弧菌 O1 分离物正式归入 7PET 或非流行系。基于旅行者分离物的定期合作基因组研究可提供有关循环菌株及其演变的有用信息,特别是有关 AMR 的信息。
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Genomic analysis of Vibrio cholerae O1 isolates from cholera cases, Europe, 2022.

BackgroundThe number of cholera cases reported to the World Health Organization (WHO) in 2022 was more than double that of 2021. Nine countries of the WHO European Region reported 51 cases of cholera in 2022 vs five reported cases in 2021.AimWe aimed to confirm that the Vibrio cholerae O1 isolates reported by WHO European Region countries in 2022 belonged to the seventh pandemic El Tor lineage (7PET). We also studied their virulence, antimicrobial resistance (AMR) determinants and phylogenetic relationships.MethodsWe used microbial genomics to study the 49 V. cholerae O1 isolates recovered from the 51 European cases. We also used > 1,450 publicly available 7PET genomes to provide a global phylogenetic context for these 49 isolates.ResultsAll 46 good-quality genomes obtained belonged to the 7PET lineage. All but two isolates belonged to genomic Wave 3 and were grouped within three sub-lineages, one of which, Pre-AFR15, predominated (34/44). This sub-lineage, corresponding to isolates from several countries in Southern Asia, the Middle East and Eastern or Southern Africa, was probably a major contributor to the global upsurge of cholera cases in 2022. No unusual AMR profiles were inferred from analysis of the AMR gene content of the 46 genomes.ConclusionReference laboratories in high-income countries should use whole genome sequencing to assign V. cholerae O1 isolates formally to the 7PET or non-epidemic lineages. Periodic collaborative genomic studies based on isolates from travellers can provide useful information on the circulating strains and their evolution, particularly as concerns AMR.

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来源期刊
Eurosurveillance
Eurosurveillance INFECTIOUS DISEASES-
CiteScore
32.70
自引率
2.10%
发文量
430
审稿时长
3-8 weeks
期刊介绍: Eurosurveillance is a European peer-reviewed journal focusing on the epidemiology, surveillance, prevention, and control of communicable diseases relevant to Europe.It is a weekly online journal, with 50 issues per year published on Thursdays. The journal includes short rapid communications, in-depth research articles, surveillance reports, reviews, and perspective papers. It excels in timely publication of authoritative papers on ongoing outbreaks or other public health events. Under special circumstances when current events need to be urgently communicated to readers for rapid public health action, e-alerts can be released outside of the regular publishing schedule. Additionally, topical compilations and special issues may be provided in PDF format.
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