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Whole-genome sequencing resolves a polyclonal outbreak by extended-spectrum beta-lactam and carbapenem-resistant Klebsiella pneumoniae in a Portuguese tertiary-care hospital

2021-06Contribution to journal Open access
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datacite.subject.fosCiências Médicas
datacite.subject.sdg03:Saúde de Qualidade
dc.contributor.authorPerdigão, João
dc.contributor.authorModesto, Ana
dc.contributor.authorPereira, A. L.
dc.contributor.authorNeto, O.
dc.contributor.authorMatos, V.
dc.contributor.authorGodinho, A.
dc.contributor.authorPhelan, Jody
dc.contributor.authorCharleston, James
dc.contributor.authorSpadar, Anton
dc.contributor.authorSessions, Paola Florez de
dc.contributor.authorHibberd, Martin
dc.contributor.authorCampino, Susana
dc.contributor.authorCosta, A.
dc.contributor.authorFernandes, F.
dc.contributor.authorFerreira, F.
dc.contributor.authorCorreia, A. B.
dc.contributor.authorGonçalves, Luisa
dc.contributor.authorClark, Taane G.
dc.contributor.authorDuarte, Aida
dc.date.accessioned2025-10-16T14:41:30Z
dc.date.available2025-10-16T14:41:30Z
dc.date.issued2021-06
dc.description.abstractKlebsiella pneumoniae has emerged as an important nosocomial pathogen, with whole-genome sequencing (WGS) significantly improving our ability to characterize associated outbreaks. Our study sought to perform a genome-wide analysis of multiclonal K. pneumoniae isolates (n=39; 23 patients) producing extended spectrum beta-lactamases and/or carbapenemases sourced between 2011 and 2016 in a Portuguese tertiary-care hospital. All isolates showed resistance to third-generation cephalosporins and six isolates (five patients) were also carbapenem resistant. Genome-wide-based phylogenetic analysis revealed a topology representing ongoing dissemination of three main sequence-type (ST) clades (ST15, ST147 and ST307) and transmission across different wards, compatible with missing links that can take the form of undetected colonized patients. Two carbapenemase-coding genes were detected: blaKPC-3, located on a Tn4401d transposon, and blaGES-5 on a novel class 3 integron. Additionally, four genes coding for ESBLs (blaBEL-1, blaCTX-M-8, blaCTX-M-15 and blaCTX-M-32) were also detected. ESBL horizontal dissemination across five clades is highlighted by the similar genetic environments of blaCTX-M-15 gene upstream of ISEcp1 on a Tn3-like transposon. Overall, this study provides a high-resolution genome-wide perspective on the epidemiology of ESBL and carbapenemase-producing K. pneumoniae in a healthcare setting while contributing for the adoption of appropriate intervention and prevention strategies.eng
dc.identifier.citationPerdigão et al., Whole-genome sequencing resolves a polyclonal outbreak by extended-spectrum beta-lactam and carbapenem-resistant Klebsiella pneumoniae in a Portuguese tertiary-care hospital. Microbial Genomics, 2020;7(6):000349 DOI 10.1099/mgen.0.000349
dc.identifier.doi10.1099/mgen.0.000349
dc.identifier.issn2057-5858
dc.identifier.urihttp://hdl.handle.net/10400.26/59236
dc.language.isoeng
dc.peerreviewedyes
dc.publisherMicrobiology Society
dc.relation.hasversionhttps://doi.org/10.1099/mgen.0.000349
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.subjectESBL
dc.subjectKPC
dc.subjectCTX-M
dc.subjectGram-negative
dc.subjectPortugal
dc.titleWhole-genome sequencing resolves a polyclonal outbreak by extended-spectrum beta-lactam and carbapenem-resistant Klebsiella pneumoniae in a Portuguese tertiary-care hospitaleng
dc.typecontribution to journal
dspace.entity.typePublication
oaire.citation.issue6
oaire.citation.startPage000349
oaire.citation.titleMicrobial Genomics
oaire.citation.volume7
oaire.versionhttp://purl.org/coar/version/c_970fb48d4fbd8a85

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