Genomic epidemiology of carbapenemase producing Klebsiella pneumoniae strains at a northern Portuguese hospital enables the detection of a misidentified Klebsiella variicola KPC-3 producing strain

Detalhes bibliográficos
Autor(a) principal: Perdigão, João
Data de Publicação: 2020
Outros Autores: Caneiras, Catia, Elias, Rita, Modesto, Ana, Spadar, Anton, Phelan, Jody, Campino, Susana, Clark, Taane G., Costa, Eliana, Saavedra, Maria José, Duarte, Aida
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10451/45359
Resumo: © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
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spelling Genomic epidemiology of carbapenemase producing Klebsiella pneumoniae strains at a northern Portuguese hospital enables the detection of a misidentified Klebsiella variicola KPC-3 producing strainKlebsiella pneumoniaeKlebsiella variicolaKPC-3OXA-48Gram-negativeMolecular epidemiologyCarbapenemaseWhole-genome sequencingEnterobacteriaceaePortugal© 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).The evolutionary epidemiology, resistome, virulome and mobilome of thirty-one multidrug resistant Klebsiella pneumoniae clinical isolates from the northern Vila Real region of Portugal were characterized using whole-genome sequencing and bioinformatic analysis. The genomic population structure was dominated by two main sequence types (STs): ST147 (n = 17; 54.8%) and ST15 (n = 6; 19.4%) comprising four distinct genomic clusters. Two main carbapenemase coding genes were detected (blaKPC-3 and blaOXA-48) along with additional extended-spectrum β-lactamase coding loci (blaCTX-M-15, blaSHV-12, blaSHV-27, and blaSHV-187). Moreover, whole genome sequencing enabled the identification of one Klebsiella variicola KPC-3 producer isolate previously misidentified as K. pneumoniae, which in addition to the blaKPC-3 carbapenemase gene, bore the chromosomal broad spectrum β-lactamase blaLEN-2 coding gene, oqxAB and fosA resistance loci. The blaKPC-3 genes were located in a Tn4401b transposon (K. variicolan = 1; K. pneumoniaen = 2) and Tn4401d isoform (K. pneumoniaen = 28). Overall, our work describes the first report of a blaKPC-3 producing K. variicola, as well as the detection of this species during infection control measures in surveillance cultures from infected patients. It also highlights the importance of additional control measures to overcome the clonal dissemination of carbapenemase producing clones.This work was supported in part by UID/DTP/04138/2019 and UIDB/04033/2020 from Fundação para a Ciência e Tecnologia (FCT), Portugal.MDPIRepositório da Universidade de LisboaPerdigão, JoãoCaneiras, CatiaElias, RitaModesto, AnaSpadar, AntonPhelan, JodyCampino, SusanaClark, Taane G.Costa, ElianaSaavedra, Maria JoséDuarte, Aida2020-12-15T17:17:01Z20202020-01-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10451/45359engMicroorganisms 2020, 8, 1986.2076-260710.3390/microorganisms8121986info:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2023-11-08T16:47:07Zoai:repositorio.ul.pt:10451/45359Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T21:57:49.307455Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse
dc.title.none.fl_str_mv Genomic epidemiology of carbapenemase producing Klebsiella pneumoniae strains at a northern Portuguese hospital enables the detection of a misidentified Klebsiella variicola KPC-3 producing strain
title Genomic epidemiology of carbapenemase producing Klebsiella pneumoniae strains at a northern Portuguese hospital enables the detection of a misidentified Klebsiella variicola KPC-3 producing strain
spellingShingle Genomic epidemiology of carbapenemase producing Klebsiella pneumoniae strains at a northern Portuguese hospital enables the detection of a misidentified Klebsiella variicola KPC-3 producing strain
Perdigão, João
Klebsiella pneumoniae
Klebsiella variicola
KPC-3
OXA-48
Gram-negative
Molecular epidemiology
Carbapenemase
Whole-genome sequencing
Enterobacteriaceae
Portugal
title_short Genomic epidemiology of carbapenemase producing Klebsiella pneumoniae strains at a northern Portuguese hospital enables the detection of a misidentified Klebsiella variicola KPC-3 producing strain
title_full Genomic epidemiology of carbapenemase producing Klebsiella pneumoniae strains at a northern Portuguese hospital enables the detection of a misidentified Klebsiella variicola KPC-3 producing strain
title_fullStr Genomic epidemiology of carbapenemase producing Klebsiella pneumoniae strains at a northern Portuguese hospital enables the detection of a misidentified Klebsiella variicola KPC-3 producing strain
title_full_unstemmed Genomic epidemiology of carbapenemase producing Klebsiella pneumoniae strains at a northern Portuguese hospital enables the detection of a misidentified Klebsiella variicola KPC-3 producing strain
title_sort Genomic epidemiology of carbapenemase producing Klebsiella pneumoniae strains at a northern Portuguese hospital enables the detection of a misidentified Klebsiella variicola KPC-3 producing strain
author Perdigão, João
author_facet Perdigão, João
Caneiras, Catia
Elias, Rita
Modesto, Ana
Spadar, Anton
Phelan, Jody
Campino, Susana
Clark, Taane G.
Costa, Eliana
Saavedra, Maria José
Duarte, Aida
author_role author
author2 Caneiras, Catia
Elias, Rita
Modesto, Ana
Spadar, Anton
Phelan, Jody
Campino, Susana
Clark, Taane G.
Costa, Eliana
Saavedra, Maria José
Duarte, Aida
author2_role author
author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Repositório da Universidade de Lisboa
dc.contributor.author.fl_str_mv Perdigão, João
Caneiras, Catia
Elias, Rita
Modesto, Ana
Spadar, Anton
Phelan, Jody
Campino, Susana
Clark, Taane G.
Costa, Eliana
Saavedra, Maria José
Duarte, Aida
dc.subject.por.fl_str_mv Klebsiella pneumoniae
Klebsiella variicola
KPC-3
OXA-48
Gram-negative
Molecular epidemiology
Carbapenemase
Whole-genome sequencing
Enterobacteriaceae
Portugal
topic Klebsiella pneumoniae
Klebsiella variicola
KPC-3
OXA-48
Gram-negative
Molecular epidemiology
Carbapenemase
Whole-genome sequencing
Enterobacteriaceae
Portugal
description © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
publishDate 2020
dc.date.none.fl_str_mv 2020-12-15T17:17:01Z
2020
2020-01-01T00:00:00Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://hdl.handle.net/10451/45359
url http://hdl.handle.net/10451/45359
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Microorganisms 2020, 8, 1986.
2076-2607
10.3390/microorganisms8121986
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv MDPI
publisher.none.fl_str_mv MDPI
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron:RCAAP
instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron_str RCAAP
institution RCAAP
reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
collection Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
repository.name.fl_str_mv Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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