Populations of extended-spectrum β-lactamase-producing Escherichia coli and Klebsiella pneumoniae are different in human-polluted environment and food items: a multicentre European study,Clinical Microbiology and Infection

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Populations of extended-spectrum β-lactamase-producing Escherichia coli and Klebsiella pneumoniae are different in human-polluted environment and food items: a multicentre European study
Clinical Microbiology and Infection ( IF 10.9 ) Pub Date : 2021-07-26 , DOI: 10.1016/j.cmi.2021.07.022
Daniel Martak ₁ , Julia Guther ₂ , Tess D Verschuuren ₃ , Benoit Valot ₄ , Nadine Conzelmann ₅ , Stefanie Bunk ₅ , M Eugenia Riccio ₆ , Elena Salamanca ₇ , Alexandre Meunier ₈ , Charles P Henriot ₄ , Caroline Pressacco Brossier ₆ , Xavier Bertrand ₁ , Ben S Cooper ₉ , Stephan Harbarth ₆ , Evelina Tacconelli ₁₀ , Ad C Fluit ₁₁ , Jesús Rodriguez-Baño ₇ , Jan A J W Kluytmans ₁₂ , Silke Peter ₂ , Didier Hocquet ₁₃ ,

Affiliation

Infection Control Unit, University Hospital of Besancon, Besancon, France; UMR 6249, Laboratoire Chrono-environnement, CNRS-Université de Bourgogne Franche-Comté, Besançon, France.
Institute of Medical Microbiology and Hygiene, University Hospital Tübingen, Tübingen, Germany.
Julius Centre for Health Sciences and Primary Care, University Medical Centre Utrecht, Utrecht, the Netherlands.
UMR 6249, Laboratoire Chrono-environnement, CNRS-Université de Bourgogne Franche-Comté, Besançon, France.
Division of Infectious Diseases, Department of Internal Medicine I, University Hospital Tübingen, Tübingen, Germany.
Infection Control Program, Geneva University Hospital and Faculty of Medicine, Geneva, Switzerland.
Department of Infectious Diseases and Clinical Microbiology, University Hospital Virgen Macarena and Department of Medicine, University of Sevilla / Biomedicines Institute of Sevilla (IBiS), Sevilla, Spain.
Infection Control Unit, University Hospital of Besancon, Besancon, France.
Centre for Tropical Medicine & Global Health, Nuffield Department of Medicine, University of Oxford, United Kingdom.
Division of Infectious Diseases, Department of Internal Medicine I, University Hospital Tübingen, Tübingen, Germany; Infectious Diseases, Department of Diagnostics and Public Health, University of Verona, Italy.
Department of Medical Microbiology, University Medical Centre Utrecht, Utrecht, the Netherlands.
Julius Centre for Health Sciences and Primary Care, University Medical Centre Utrecht, Utrecht, the Netherlands; Amphia Hospital Breda, Microvida Laboratory for Medical Microbiology, Breda, the Netherlands.
Infection Control Unit, University Hospital of Besancon, Besancon, France; UMR 6249, Laboratoire Chrono-environnement, CNRS-Université de Bourgogne Franche-Comté, Besançon, France; Centre de Ressources Biologiques - Filière Microbiologique de Besançon, Centre Hospitalier Régional Universitaire, Besançon, France.

Objectives

To assess the extent to which food items are a source of extended-spectrum β-lactamase (ESBL) -producing Escherichia coli (ESBL-Ec) and ESBL-producing Klebsiella pneumoniae (ESBL-Kp) for humans in five European cities.

Methods

We sampled 122 human polluted (hp)-environments (sewers and polluted rivers, as a proxy of human contamination) and 714 food items in Besançon (France), Geneva (Switzerland), Sevilla (Spain), Tübingen (Germany) and Utrecht (The Netherlands). A total of 254 ESBL-Ec and 39 ESBL-Kp isolates were cultured. All genomes were fully sequenced to compare their sequence types (ST) and core genomes, along with the distribution of bla_ESBL genes and their genetic supports (i.e. chromosome or plasmid).

Results

Sequence data revealed that ESBL-Ec and ESBL-Kp isolates from hp-environments were genetically different from those contaminating food items. ESBL-Ec ST131 was widespread in the hp-environment (21.5% of the isolates) but absent from the food items tested. ESBL-Ec ST10 was in similar proportions in hp-environments and food items (15 and 10 isolates, respectively) but mostly carried reservoir-specific bla_ESBL. bla_CTX-M-1 and bla_SHV-12 predominated in food-related E. coli isolates (32% and 34% of the isolates, respectively), whereas bla_CTX-M-15 and bla_CTX-M-27 predominated in isolates from hp-environments (52% and 15% of the isolates, respectively).

Conclusions

We found a very limited connection between ESBL-Ec and ESBL-Kp populations retrieved in food items and from hp-environments and bla_ESBL. This suggests that human-to-human contamination, rather than the food chain, is possibly the most frequent route of ESBL-Ec and ESBL-Kp transmission in high-income countries.

中文翻译：

产生超广谱β-内酰胺酶的大肠杆菌和肺炎克雷伯菌的种群在人类污染的环境和食品中是不同的：一项多中心欧洲研究

目标

评估五个欧洲城市的人类食品在多大程度上是产生超广谱 β-内酰胺酶 (ESBL)的大肠杆菌(ESBL-Ec) 和产生 ESBL 的肺炎克雷伯菌(ESBL-Kp) 的来源。

方法

我们在贝桑松（法国）、日内瓦（瑞士）、塞维利亚（西班牙）、蒂宾根（德国）和乌得勒支（荷兰人）。共培养了 254 个 ESBL-Ec 和 39 个 ESBL-Kp 分离株。所有基因组都被完全测序以比较它们的序列类型（ST）和核心基因组，以及bla _ESBL基因的分布及其遗传支持（即染色体或质粒）。

结果

序列数据显示，来自 hp 环境的 ESBL-Ec 和 ESBL-Kp 分离物在遗传上与那些污染食品的不同。ESBL-Ec ST131 在 hp 环境中广泛存在（21.5% 的分离株），但在测试的食品中不存在。ESBL-Ec ST10 在 hp 环境和食品中的比例相似（分别为 15 和 10 个分离株），但主要携带特定于水库的bla _ESBL。bla _CTX-M-1和bla _SHV-12在与食品相关的大肠杆菌分离物中占主导地位（分别占分离物的 32% 和 34%），而bla _CTX-M-15和bla _CTX-M-27在来自 hp 环境的分离株中占主导地位（分别为 52% 和 15% 的分离株）。