Division of Infectious Diseases and Hospital Epidemiology, University Hospital Basel, Basel, Switzerland; Department of Clinical Research, University Hospital Basel, Basel, Switzerland.
State Laboratory Basel-City, Basel, Switzerland.
Sci Total Environ. 2024 Nov 10;950:175078. doi: 10.1016/j.scitotenv.2024.175078. Epub 2024 Jul 26.
Following a one-health approach, we sought to determine reservoirs of extended-spectrum β-lactamase (ESBL)-producing Enterobacterales (ESBL-PE), other than Escherichia coli or Klebsiella pneumoniae complex species (i.e., low-abundant species), and their associated ESBL genes and plasmid-replicon profiles.
From 06/2017-05/2019, ESBL-PE isolates were recovered from clinical samples routinely collected at the University Hospital Basel (Basel, Switzerland), as well as from wastewater and foodstuffs collected monthly at predefined locations throughout the city of Basel. Whole-genome sequencing was performed for characterization of ESBL-PE isolates.
Among 1634 isolates recovered, 114 (7%) belonged to 17 low-abundant ESBL-PE species. Seven species originated from more than one compartment, mainly from clinical and wastewater samples (6/17). Sixteen different ESBL genes were identified, with bla (27%), bla (23%) and bla (16%) being most frequent. The bla gene was the only ESBL gene recovered from all three compartments. Putative plasmids constituted 60% of ESBL gene-containing contigs, while chromosomes comprised 40%. Foodstuff isolates showed the highest proportion (91%, 41/45) of ESBL genes located on chromosomes, whereas wastewater isolates had the highest proportion (95%, 37/39) of putative plasmids. Multi-replicon combinations were identified in 81% of the isolates. Epidemiological links were found among some clinical and wastewater isolates.
The dominance of bla among low-abundant ESBL-PE species supports its species-independent transmission potential beyond the E. coli and K. pneumoniae complex, and bla may be transmitted between strains recovered from different compartments. The substantial overlap between low-abundant ESBL-PE present in wastewater and clinical samples supports the utility of wastewater surveillance for antibiotic resistance monitoring.
我们采用一种One Health 方法，旨在确定除大肠埃希菌或肺炎克雷伯菌复合体（即低丰度物种）以外的产超广谱β-内酰胺酶（ESBL）肠杆菌科（ESBL-PE）的储库，以及它们相关的 ESBL 基因和质粒复制子特征。
从 2017 年 6 月至 2019 年 5 月，我们从巴塞尔大学医院（瑞士巴塞尔）常规采集的临床样本以及每月在巴塞尔市预先指定地点采集的废水和食品中回收 ESBL-PE 分离株。对 ESBL-PE 分离株进行全基因组测序以进行特征描述。
在回收的 1634 株分离株中，有 114 株（7%）属于 17 种低丰度 ESBL-PE 种。有 7 个种起源于多个部位，主要来自临床和废水样本（17/6）。鉴定出 16 种不同的 ESBL 基因，其中 bla (27%)、bla (23%)和 bla (16%)最为常见。bla 基因是从所有三个部位都回收的唯一 ESBL 基因。推定质粒构成了含有 ESBL 基因的基因簇的 60%，而染色体构成了 40%。食品分离株中位于染色体上的 ESBL 基因比例最高（91%，41/45），而废水分离株中推定质粒的比例最高（95%，37/39）。在 81%的分离株中发现了多复制子组合。一些临床和废水分离株之间存在流行病学联系。
低丰度 ESBL-PE 种中 bla 的优势支持其在大肠埃希菌和肺炎克雷伯菌复合体之外的种间传播潜力，并且 bla 可能在从不同部位回收的菌株之间传播。废水中存在的低丰度 ESBL-PE 与临床样本之间存在很大的重叠，支持利用废水监测进行抗生素耐药性监测。
