Phylogeny, Resistome, and Virulome of Escherichia coli Causing Biliary Tract Infections

Escherichia coli is the most frequent Gram-negative bacilli involved in intra-abdominal infections. However, despite high mortality rates associated with biliary tract infections due to E. coli, there is no study focusing on this pathogen. In this study, we have characterized a group of 15 E. coli i...

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Detalhes bibliográficos
Autores: Rodríguez-Villodres, Ángel, Bonnin, Rémy A., Ortiz de la Rosa, José Manuel, Álvarez-Marín, Rocío, Naas, Thierry, Aznar Martín, Javier, Pachón, Jerónimo, Lepe, José A., Smani, Younes
Formato: artículo
Estado:Versión publicada
Fecha de publicación:2019
País:España
Recursos:Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/213049
Acesso em linha:http://hdl.handle.net/10261/213049
Access Level:acceso abierto
Palavra-chave:Escherichia coli
Biliary tract infection
Virulome
Resistome
Biofilms
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spelling Phylogeny, Resistome, and Virulome of Escherichia coli Causing Biliary Tract InfectionsRodríguez-Villodres, ÁngelBonnin, Rémy A.Ortiz de la Rosa, José ManuelÁlvarez-Marín, RocíoNaas, ThierryAznar Martín, JavierPachón, JerónimoLepe, José A.Smani, YounesEscherichia coliBiliary tract infectionVirulomeResistomeBiofilmsEscherichia coli is the most frequent Gram-negative bacilli involved in intra-abdominal infections. However, despite high mortality rates associated with biliary tract infections due to E. coli, there is no study focusing on this pathogen. In this study, we have characterized a group of 15 E. coli isolates obtained from 12 patients with biliary tract infections. Demographic and clinical data of the patients were recovered. Phylogeny, resistome, and virulome analysis through whole genome sequencing and biofilm formation were investigated. Among the 15 E. coli isolates, no predominant sequence type (ST) was identified, although 3 of them belonged to unknown STs (20%). Resistance to ampicillin, amoxicillin/clavulanic acid, cotrimoxazole, and quinolones was more present in these isolates; whereas, third and fourth generation cephalosporins, carbapenems, amikacin, tigecycline, and colistin were highly active. Moreover, high diversity of virulence factors has been found, with sfa, fimH, and gad the most frequently detected genes. Interestingly, 26.6% of the E. coli isolates were high biofilm-producers. Altogether, our data characterized for the first time E. coli isolates associated with biliary tract infections in terms of genomic relationship, resistome, and virulome.This work was supported by the Miguel Servet Tipo I Project grant, Instituto de Salud Carlos III, Subdirección General de Redes y Centros de Investigación Cooperativa, Ministerio de Ciencia, Innovación y Universidades (CP15/00132), and by Plan Nacional de I+D+i 2013-2016 and Instituto de Salud Carlos III, Subdirección General de Redes y Centros de Investigación Cooperativa, Ministerio de Ciencia, Innovación y Universidades, Spanish Network for Research in Infectious Diseases (RD16/0016/0009), cofinanced by the European Development Regional Fund “A Way to Achieve Europe,” Operative Program Intelligent Growth 2014-2020. This study was supported by the Assistance Publique – Hôpitaux de Paris (AP-HP), the University Paris-Sud, the Laboratory of Excellence in Research on Medication and Innovative Therapeutics (LERMIT) supported by a grant from the French National Research Agency (ANR-10-LABX-33). Y.S. is supported by the Subprograma Miguel Servet Tipo I, Instituto de Salud Carlos III, Subdirección General de Redes y Centros de Investigación Cooperativa, Ministerio de Ciencia, Innovación y Universidades, Spain (CP15/00132). A.R.V. is supported by the Subprograma Río Hortega, Instituto de Salud Carlos III, Subdirección General de Redes y Centros de Investigación Cooperativa, Ministerio de Ciencia, Innovación y Universidades, Spain (CM18/00122). R.A.M. is supported by the Subprograma Juan Rodés, Instituto de Salud Carlos III, Subdirección General de Redes y Centros de Investigación Cooperativa, Ministerio de Ciencia, Innovación y Universidades, Spain (JR17/00025).Peer reviewedMultidisciplinary Digital Publishing InstituteInstituto de Salud Carlos IIIMinisterio de Ciencia, Innovación y Universidades (España)Red Española de Investigación en Patología InfecciosaEuropean CommissionUniversité Paris-SudHôpitaux de ParisAgence Nationale de la Recherche (France)Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]202020202019info:eu-repo/semantics/articlehttp://purl.org/coar/resource_type/c_6501Publisher's versioninfo:eu-repo/semantics/publishedVersionhttp://hdl.handle.net/10261/213049reponame:DIGITAL.CSIC. Repositorio Institucional del CSICinstname:Consejo Superior de Investigaciones Científicas (CSIC)Ingléshttps://doi.org/10.3390/jcm8122118Síinfo:eu-repo/semantics/openAccessoai:digital.csic.es:10261/2130492026-05-22T06:33:51Z
dc.title.none.fl_str_mv Phylogeny, Resistome, and Virulome of Escherichia coli Causing Biliary Tract Infections
title Phylogeny, Resistome, and Virulome of Escherichia coli Causing Biliary Tract Infections
spellingShingle Phylogeny, Resistome, and Virulome of Escherichia coli Causing Biliary Tract Infections
Rodríguez-Villodres, Ángel
Escherichia coli
Biliary tract infection
Virulome
Resistome
Biofilms
title_short Phylogeny, Resistome, and Virulome of Escherichia coli Causing Biliary Tract Infections
title_full Phylogeny, Resistome, and Virulome of Escherichia coli Causing Biliary Tract Infections
title_fullStr Phylogeny, Resistome, and Virulome of Escherichia coli Causing Biliary Tract Infections
title_full_unstemmed Phylogeny, Resistome, and Virulome of Escherichia coli Causing Biliary Tract Infections
title_sort Phylogeny, Resistome, and Virulome of Escherichia coli Causing Biliary Tract Infections
dc.creator.none.fl_str_mv Rodríguez-Villodres, Ángel
Bonnin, Rémy A.
Ortiz de la Rosa, José Manuel
Álvarez-Marín, Rocío
Naas, Thierry
Aznar Martín, Javier
Pachón, Jerónimo
Lepe, José A.
Smani, Younes
author Rodríguez-Villodres, Ángel
author_facet Rodríguez-Villodres, Ángel
Bonnin, Rémy A.
Ortiz de la Rosa, José Manuel
Álvarez-Marín, Rocío
Naas, Thierry
Aznar Martín, Javier
Pachón, Jerónimo
Lepe, José A.
Smani, Younes
author_role author
author2 Bonnin, Rémy A.
Ortiz de la Rosa, José Manuel
Álvarez-Marín, Rocío
Naas, Thierry
Aznar Martín, Javier
Pachón, Jerónimo
Lepe, José A.
Smani, Younes
author2_role author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Instituto de Salud Carlos III
Ministerio de Ciencia, Innovación y Universidades (España)
Red Española de Investigación en Patología Infecciosa
European Commission
Université Paris-Sud
Hôpitaux de Paris
Agence Nationale de la Recherche (France)
Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72]
dc.subject.none.fl_str_mv Escherichia coli
Biliary tract infection
Virulome
Resistome
Biofilms
topic Escherichia coli
Biliary tract infection
Virulome
Resistome
Biofilms
description Escherichia coli is the most frequent Gram-negative bacilli involved in intra-abdominal infections. However, despite high mortality rates associated with biliary tract infections due to E. coli, there is no study focusing on this pathogen. In this study, we have characterized a group of 15 E. coli isolates obtained from 12 patients with biliary tract infections. Demographic and clinical data of the patients were recovered. Phylogeny, resistome, and virulome analysis through whole genome sequencing and biofilm formation were investigated. Among the 15 E. coli isolates, no predominant sequence type (ST) was identified, although 3 of them belonged to unknown STs (20%). Resistance to ampicillin, amoxicillin/clavulanic acid, cotrimoxazole, and quinolones was more present in these isolates; whereas, third and fourth generation cephalosporins, carbapenems, amikacin, tigecycline, and colistin were highly active. Moreover, high diversity of virulence factors has been found, with sfa, fimH, and gad the most frequently detected genes. Interestingly, 26.6% of the E. coli isolates were high biofilm-producers. Altogether, our data characterized for the first time E. coli isolates associated with biliary tract infections in terms of genomic relationship, resistome, and virulome.
publishDate 2019
dc.date.none.fl_str_mv 2019
2020
2020
dc.type.none.fl_str_mv info:eu-repo/semantics/article
http://purl.org/coar/resource_type/c_6501
Publisher's version
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10261/213049
url http://hdl.handle.net/10261/213049
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv https://doi.org/10.3390/jcm8122118
Sí
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Multidisciplinary Digital Publishing Institute
publisher.none.fl_str_mv Multidisciplinary Digital Publishing Institute
dc.source.none.fl_str_mv reponame:DIGITAL.CSIC. Repositorio Institucional del CSIC
instname:Consejo Superior de Investigaciones Científicas (CSIC)
instname_str Consejo Superior de Investigaciones Científicas (CSIC)
reponame_str DIGITAL.CSIC. Repositorio Institucional del CSIC
collection DIGITAL.CSIC. Repositorio Institucional del CSIC
repository.name.fl_str_mv
repository.mail.fl_str_mv
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