在荷兰一家综合医院发生大规模暴发11年后,产碳青霉烯酶肠杆菌中携带bla oxa -48质粒的多样化

IF 4 2区 生物学 Q1 GENETICS & HEREDITY
Pieter W Smit, Carla van Tienen, Fabian Landman, Sabrina Zagers, Marije den Drijver, Arjan Burggraaf, Daan W Notermans, Marjolein Damen, Antoni P A Hendrickx, Casper Jamin
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引用次数: 0

摘要

介绍。编码oxa -48样碳青霉烯水解酶的基因通常位于质粒上,在全球产碳青霉烯酶肠杆菌(CPE)中含量丰富。在2011年爆发大规模bla OXA-48质粒介导的暴发后,荷兰的一家大医院在入院时和住院期间每7天对有携带CPE风险的患者进行常规筛查。本研究的目的是调查2011 - 2021年医院收集的CPE中与2011年暴发相关的bla OXA-48质粒的动态。从11年收集的374株CPE分离株中筛选出86株携带bla oxa -48的CPE分离株。菌种包括大肠杆菌(Eco)、肺炎克雷伯菌(Kpn)、阴沟肠杆菌复群(Ecl)、弗氏Citrobacter freundii (Cfr)、科斯利Citrobacter koseri (Cko)和摩根氏摩根菌(Mmo)。将所有分离株的短读测序与长读测序相结合,重建CPE的bla oxa -48样质粒和染色体。采用MASH、MOBsuite、ResFinder、PlasmidFinder和SNP分析研究多样性。将pOXA-48质粒序列与同一时期荷兰CPE监测的质粒序列进行了比较。共重建了2个失败的基因组片段和78个编码bla - OXA-48的质粒,并对6个bla - OXA-48基因进行了染色体定位。2011年爆发相关的bla OXA-48质粒63.6 kb,内含IncL复制子,主要在2011年至2014年期间在Cfr、Ecl、Eco、Kpn和Mmo中发现,并作为MASH最近的邻居标记为LR025105。从2014年起,发现了11种携带不同抗生素抗性基因和复制子的其他类型的bla oxa -48质粒,代表了荷兰发现的早期定义的独特pOXA-48质粒群。此外,在全国范围内,2015年后在许多不同的细菌背景中发现了LR025105质粒,突出了该pOXA-48质粒的混杂性。荷兰某大医院发生bla OXA-48大规模暴发后,该医院bla OXA-48质粒种群组成随着时间的推移呈现多样化,与国家监测数据一致。质粒测序为bla OXA-48编码质粒的传播动力学提供了有价值的见解,并且没有显示2011年bla OXA-48质粒在医院环境中的持久性。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Diversification of bla OXA-48-harbouring plasmids among carbapenemase-producing Enterobacterales, 11 years after a large outbreak in a general hospital in the Netherlands.

Introduction. Genes encoding OXA-48-like carbapenem-hydrolyzing enzymes are often located on plasmids and are abundant among carbapenemase-producing Enterobacterales (CPE) worldwide. After a large bla OXA-48 plasmid-mediated outbreak in 2011, routine screening of patients at risk of CPE carriage on admission and every 7 days during hospitalization was implemented in a large hospital in the Netherlands. The objective of this study was to investigate the dynamics of the hospitals' 2011 outbreak-associated bla OXA-48 plasmid among CPE collected from 2011 to 2021.Methods. A selection of 86 bla OXA-48-carrying CPE isolates was made from 374 isolates collected over an 11-year study period. Species included Escherichia coli (Eco), Klebsiella pneumoniae (Kpn), Enterobacter cloacae complex (Ecl), Citrobacter freundii (Cfr), Citrobacter koseri (Cko) and Morganella morgani (Mmo). Short-read sequencing was combined with long-read sequencing for all isolates to reconstruct bla OXA-48-like plasmids and chromosomes of CPE. MASH, MOBsuite, ResFinder, PlasmidFinder and SNP analyses were performed to study diversity. pOXA-48 plasmids were compared to plasmid sequences that were sequenced for the Dutch CPE surveillance in the same time period.Results. In total for the 86 CPE, 2 failed genomic assemblies and 78 bla OXA-48-encoding plasmids were reconstructed, and six bla OXA-48 genes were located chromosomally. The 2011 outbreak-associated bla OXA-48 plasmid of 63.6 kb with IncL replicon was found in Cfr, Ecl, Eco, Kpn and Mmo and primarily between 2011 and 2014 and indicated as LR025105 as MASH nearest neighbour. From 2014 onwards, 11 other types of bla OXA-48-carrying plasmids with different antibiotic-resistant genes and replicons were discovered, representing the earlier defined distinct pOXA-48 plasmid groups found in the Netherlands. Furthermore, on a national level, the LR025105 plasmid was found after 2015 in many different bacterial backgrounds, highlighting the promiscuous nature of this pOXA-48 plasmid.Conclusion. After a large bla OXA-48 outbreak in a large hospital in the Netherlands, the composition of the bla OXA-48 plasmid population in this hospital diversified over time and is in line with national surveillance data. Plasmid sequencing provided valuable insight into the transmission dynamics of bla OXA-48-encoding plasmids and showed no indication of the persistence of the 2011 bla OXA-48 plasmid in the hospital environment.

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来源期刊
Microbial Genomics
Microbial Genomics Medicine-Epidemiology
CiteScore
6.60
自引率
2.60%
发文量
153
审稿时长
12 weeks
期刊介绍: Microbial Genomics (MGen) is a fully open access, mandatory open data and peer-reviewed journal publishing high-profile original research on archaea, bacteria, microbial eukaryotes and viruses.
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