A descriptive analysis of urinary ESBL-producing- Escherichia coli in Cerdanya Hospital

Urinary tract infections caused by extended-spectrum β-lactamase Escherichia coli (ESBL-EC) are increasing worldwide and are a current concern because treatment options are often limited. This study investigated antimicrobial susceptibility, antimicrobial resistance genes (ARGs), and the biological...

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Autores: Gaviria, Loreno Patrícia, Montsant, Lourdes, Azuaje, Carlos, González-Díaz, Aida, Horcajada Gallego, Juan Pablo, Limón, Enric, Viñas, Miguel, Espinal, Paula, Fusté, Ester
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2022
País:España
Institución:Universitat Pompeu Fabra
Repositorio:Repositorio Digital de la UPF
OAI Identifier:oai:repositori.upf.edu:10230/54319
Acceso en línea:http://hdl.handle.net/10230/54319
http://dx.doi.org/10.3390/microorganisms10030488
Access Level:acceso abierto
Palabra clave:Escherichia coli
Extended-spectrum β-lactamase (ESBL)
Molecular characterization
Multidrug resistance (MDR)
Sequence type (ST)
Urinary tract infections (UTI)
Whole-genome sequencing (WGS)
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spelling A descriptive analysis of urinary ESBL-producing- Escherichia coli in Cerdanya HospitalGaviria, Loreno PatríciaMontsant, LourdesAzuaje, CarlosGonzález-Díaz, AidaHorcajada Gallego, Juan PabloLimón, EnricViñas, MiguelEspinal, PaulaFusté, EsterEscherichia coliExtended-spectrum β-lactamase (ESBL)Molecular characterizationMultidrug resistance (MDR)Sequence type (ST)Urinary tract infections (UTI)Whole-genome sequencing (WGS)Urinary tract infections caused by extended-spectrum β-lactamase Escherichia coli (ESBL-EC) are increasing worldwide and are a current concern because treatment options are often limited. This study investigated antimicrobial susceptibility, antimicrobial resistance genes (ARGs), and the biological diversity of urinary ESBL-EC isolates at Cerdanya Hospital, a European cross-border hospital that combines French and Spanish healthcare models. Bacterial identification and susceptibility were determined using the Microscan WalkAway® system and ESBL production was examined by the double-disk synergy method. Isolates were sequenced using the Ion S5™ next-generation sequencing system, with the whole-genome sequences then assembled using SPADEs software and analyzed using PubMLST, ResFinder, FimTyper, PlasmidFinder, and VirulenceFinder. A phylogenetic analysis was performed by constructing an assembly-based core-SNV alignment, followed by a phylogenetic tree constructed using Parsnp from the Harvest suite. All isolates studied were multidrug-resistant and could be classified into 19 different sequence types characterized by a high genetic diversity. The most prevalent ESBL-enzymes were CTX-M-14 and CTX-M-15. High-risk international clones (ST131, ST10, and ST405) were also identified. The results demonstrated the absence of a single predominant clone of ESBL-MDR-EC at Cerdanya Hospital.MDPI202220222022info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfapplication/pdfhttp://hdl.handle.net/10230/54319http://dx.doi.org/10.3390/microorganisms10030488reponame:Repositorio Digital de la UPFinstname:Universitat Pompeu FabraInglésMicroorganisms. 2022 Feb 22;10(3):488© 2022 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 (https://creativecommons.org/licenses/by/4.0/).https://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:repositori.upf.edu:10230/543192026-06-12T07:21:37Z
dc.title.none.fl_str_mv A descriptive analysis of urinary ESBL-producing- Escherichia coli in Cerdanya Hospital
title A descriptive analysis of urinary ESBL-producing- Escherichia coli in Cerdanya Hospital
spellingShingle A descriptive analysis of urinary ESBL-producing- Escherichia coli in Cerdanya Hospital
Gaviria, Loreno Patrícia
Escherichia coli
Extended-spectrum β-lactamase (ESBL)
Molecular characterization
Multidrug resistance (MDR)
Sequence type (ST)
Urinary tract infections (UTI)
Whole-genome sequencing (WGS)
title_short A descriptive analysis of urinary ESBL-producing- Escherichia coli in Cerdanya Hospital
title_full A descriptive analysis of urinary ESBL-producing- Escherichia coli in Cerdanya Hospital
title_fullStr A descriptive analysis of urinary ESBL-producing- Escherichia coli in Cerdanya Hospital
title_full_unstemmed A descriptive analysis of urinary ESBL-producing- Escherichia coli in Cerdanya Hospital
title_sort A descriptive analysis of urinary ESBL-producing- Escherichia coli in Cerdanya Hospital
dc.creator.none.fl_str_mv Gaviria, Loreno Patrícia
Montsant, Lourdes
Azuaje, Carlos
González-Díaz, Aida
Horcajada Gallego, Juan Pablo
Limón, Enric
Viñas, Miguel
Espinal, Paula
Fusté, Ester
author Gaviria, Loreno Patrícia
author_facet Gaviria, Loreno Patrícia
Montsant, Lourdes
Azuaje, Carlos
González-Díaz, Aida
Horcajada Gallego, Juan Pablo
Limón, Enric
Viñas, Miguel
Espinal, Paula
Fusté, Ester
author_role author
author2 Montsant, Lourdes
Azuaje, Carlos
González-Díaz, Aida
Horcajada Gallego, Juan Pablo
Limón, Enric
Viñas, Miguel
Espinal, Paula
Fusté, Ester
author2_role author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Escherichia coli
Extended-spectrum β-lactamase (ESBL)
Molecular characterization
Multidrug resistance (MDR)
Sequence type (ST)
Urinary tract infections (UTI)
Whole-genome sequencing (WGS)
topic Escherichia coli
Extended-spectrum β-lactamase (ESBL)
Molecular characterization
Multidrug resistance (MDR)
Sequence type (ST)
Urinary tract infections (UTI)
Whole-genome sequencing (WGS)
description Urinary tract infections caused by extended-spectrum β-lactamase Escherichia coli (ESBL-EC) are increasing worldwide and are a current concern because treatment options are often limited. This study investigated antimicrobial susceptibility, antimicrobial resistance genes (ARGs), and the biological diversity of urinary ESBL-EC isolates at Cerdanya Hospital, a European cross-border hospital that combines French and Spanish healthcare models. Bacterial identification and susceptibility were determined using the Microscan WalkAway® system and ESBL production was examined by the double-disk synergy method. Isolates were sequenced using the Ion S5™ next-generation sequencing system, with the whole-genome sequences then assembled using SPADEs software and analyzed using PubMLST, ResFinder, FimTyper, PlasmidFinder, and VirulenceFinder. A phylogenetic analysis was performed by constructing an assembly-based core-SNV alignment, followed by a phylogenetic tree constructed using Parsnp from the Harvest suite. All isolates studied were multidrug-resistant and could be classified into 19 different sequence types characterized by a high genetic diversity. The most prevalent ESBL-enzymes were CTX-M-14 and CTX-M-15. High-risk international clones (ST131, ST10, and ST405) were also identified. The results demonstrated the absence of a single predominant clone of ESBL-MDR-EC at Cerdanya Hospital.
publishDate 2022
dc.date.none.fl_str_mv 2022
2022
2022
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10230/54319
http://dx.doi.org/10.3390/microorganisms10030488
url http://hdl.handle.net/10230/54319
http://dx.doi.org/10.3390/microorganisms10030488
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Microorganisms. 2022 Feb 22;10(3):488
dc.rights.none.fl_str_mv https://creativecommons.org/licenses/by/4.0/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv MDPI
publisher.none.fl_str_mv MDPI
dc.source.none.fl_str_mv reponame:Repositorio Digital de la UPF
instname:Universitat Pompeu Fabra
instname_str Universitat Pompeu Fabra
reponame_str Repositorio Digital de la UPF
collection Repositorio Digital de la UPF
repository.name.fl_str_mv
repository.mail.fl_str_mv
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