Genetic and Phenotypic Features to Screen for Putative Adherent-Invasive Escherichia coli

To date no molecular tools are available to identify the adherent-invasive Escherichia coli (AIEC) pathotype, which has been associated with Crohn’s disease and colonizes the intestine of different hosts. Current techniques based on phenotypic screening of isolates are extremely time-consuming. The...

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Authors: Camprubí Font, Carla, Ewers, Christa, López Siles, Mireia, Martínez Medina, Margarita
Format: article
Status:Published version
Publication Date:2019
Country:España
Institution:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
Repository:Recercat. Dipósit de la Recerca de Catalunya
OAI Identifier:oai:recercat.cat:10256/17172
Online Access:http://hdl.handle.net/10256/17172
Access Level:Open access
Keyword:Intestins -- Inflamació
Inflammatory bowel diseases
Crohn, Malaltia de
Crohn's disease
Infeccions per escheríchia coli
Escherichia coli infections
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spelling Genetic and Phenotypic Features to Screen for Putative Adherent-Invasive Escherichia coliCamprubí Font, CarlaEwers, ChristaLópez Siles, MireiaMartínez Medina, MargaritaIntestins -- InflamacióInflammatory bowel diseasesCrohn, Malaltia deCrohn's diseaseInfeccions per escheríchia coliEscherichia coli infectionsTo date no molecular tools are available to identify the adherent-invasive Escherichia coli (AIEC) pathotype, which has been associated with Crohn’s disease and colonizes the intestine of different hosts. Current techniques based on phenotypic screening of isolates are extremely time-consuming. The aim of this work was to search for signature traits to assist in rapid AIEC identification. The occurrence of at least 54 virulence genes (VGs), the resistance to 30 antibiotics and the distribution of FimH and ChiA amino acid substitutions was studied in a collection of 48 AIEC and 56 non-AIEC isolated from the intestine of humans and animals. χ2 test was used to find frequency differences according to origin of isolation, AIEC phenotype and phylogroup. Mann–Whitney test was applied to test association with adhesion and invasion indices. Binary logistic regression was performed to search for variables of predictive value. Animal strains (N = 45) were enriched in 12 VGs while 7 VGs were more predominant in human strains (N = 59). The prevalence of 15 VGs was higher in AIEC (N = 49) than in non-AIEC (N = 56) strains, but only pic gene was still differentially distributed when analyzing human and animal strains separately. Among human strains, three additional VGs presented higher frequency in AIEC strains (papGII/III, iss and vat; N = 22) than in non-AIEC strains (N = 37). No differences between AIEC/non-AIEC were found in FimH variants. In contrast, the ChiA sequence of LF82 was shared with the 35.5% of AIEC studied (N = 31) and only with the 7.4% of non-AIEC strains (N = 27; p = 0.027). Binary logistic regression analysis, using as input variables all the VGs and antibiotic resistances tested, revealed that typifying E. coli isolates using pic gene and ampicillin resistance was useful to correctly classify strains according to the phenotype with a 75.5% of accuracy. Although there is not a molecular signature fully specific and sensitive to identify the AIEC pathotype, we propose two features easy to be tested that could assist in AIEC screening. Future work using additional strain collections would be required to assess the applicability of this methodThis work was funded by the Universitat de Girona projects MPCUdG2016-009 and GdRCompetUdG2017, and the Spanish Ministry of Education and Science through projects SAF2010-15896 and SAF2013-43284-P, being the last co-funded by the European Regional Development Fund. CC-F was recipient of an IF grant from the Universitat de Girona (IFUDG2015/12)Frontiers MediaMinisterio de Ciencia e Innovación (Espanya)Ministerio de Economía y Competitividad (Espanya)2019info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionpeer-reviewedapplication/pdfhttp://hdl.handle.net/10256/17172http://hdl.handle.net/10256/17172Frontiers in Microbiology, 2019, vol. 10, art.núm. 108Articles publicats (D-B)reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)Inglésinfo:eu-repo/semantics/altIdentifier/doi/10.3389/fmicb.2019.00108info:eu-repo/semantics/altIdentifier/eissn/1664-302Xinfo:eu-repo/grantAgreement/MICINN//SAF2010-15896info:eu-repo/grantAgreement/MINECO//SAF2013-43284-PAttribution 4.0 Internationalhttp://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:recercat.cat:10256/171722026-05-29T05:05:01Z
dc.title.none.fl_str_mv Genetic and Phenotypic Features to Screen for Putative Adherent-Invasive Escherichia coli
title Genetic and Phenotypic Features to Screen for Putative Adherent-Invasive Escherichia coli
spellingShingle Genetic and Phenotypic Features to Screen for Putative Adherent-Invasive Escherichia coli
Camprubí Font, Carla
Intestins -- Inflamació
Inflammatory bowel diseases
Crohn, Malaltia de
Crohn's disease
Infeccions per escheríchia coli
Escherichia coli infections
title_short Genetic and Phenotypic Features to Screen for Putative Adherent-Invasive Escherichia coli
title_full Genetic and Phenotypic Features to Screen for Putative Adherent-Invasive Escherichia coli
title_fullStr Genetic and Phenotypic Features to Screen for Putative Adherent-Invasive Escherichia coli
title_full_unstemmed Genetic and Phenotypic Features to Screen for Putative Adherent-Invasive Escherichia coli
title_sort Genetic and Phenotypic Features to Screen for Putative Adherent-Invasive Escherichia coli
dc.creator.none.fl_str_mv Camprubí Font, Carla
Ewers, Christa
López Siles, Mireia
Martínez Medina, Margarita
author Camprubí Font, Carla
author_facet Camprubí Font, Carla
Ewers, Christa
López Siles, Mireia
Martínez Medina, Margarita
author_role author
author2 Ewers, Christa
López Siles, Mireia
Martínez Medina, Margarita
author2_role author
author
author
dc.contributor.none.fl_str_mv Ministerio de Ciencia e Innovación (Espanya)
Ministerio de Economía y Competitividad (Espanya)
dc.subject.none.fl_str_mv Intestins -- Inflamació
Inflammatory bowel diseases
Crohn, Malaltia de
Crohn's disease
Infeccions per escheríchia coli
Escherichia coli infections
topic Intestins -- Inflamació
Inflammatory bowel diseases
Crohn, Malaltia de
Crohn's disease
Infeccions per escheríchia coli
Escherichia coli infections
description To date no molecular tools are available to identify the adherent-invasive Escherichia coli (AIEC) pathotype, which has been associated with Crohn’s disease and colonizes the intestine of different hosts. Current techniques based on phenotypic screening of isolates are extremely time-consuming. The aim of this work was to search for signature traits to assist in rapid AIEC identification. The occurrence of at least 54 virulence genes (VGs), the resistance to 30 antibiotics and the distribution of FimH and ChiA amino acid substitutions was studied in a collection of 48 AIEC and 56 non-AIEC isolated from the intestine of humans and animals. χ2 test was used to find frequency differences according to origin of isolation, AIEC phenotype and phylogroup. Mann–Whitney test was applied to test association with adhesion and invasion indices. Binary logistic regression was performed to search for variables of predictive value. Animal strains (N = 45) were enriched in 12 VGs while 7 VGs were more predominant in human strains (N = 59). The prevalence of 15 VGs was higher in AIEC (N = 49) than in non-AIEC (N = 56) strains, but only pic gene was still differentially distributed when analyzing human and animal strains separately. Among human strains, three additional VGs presented higher frequency in AIEC strains (papGII/III, iss and vat; N = 22) than in non-AIEC strains (N = 37). No differences between AIEC/non-AIEC were found in FimH variants. In contrast, the ChiA sequence of LF82 was shared with the 35.5% of AIEC studied (N = 31) and only with the 7.4% of non-AIEC strains (N = 27; p = 0.027). Binary logistic regression analysis, using as input variables all the VGs and antibiotic resistances tested, revealed that typifying E. coli isolates using pic gene and ampicillin resistance was useful to correctly classify strains according to the phenotype with a 75.5% of accuracy. Although there is not a molecular signature fully specific and sensitive to identify the AIEC pathotype, we propose two features easy to be tested that could assist in AIEC screening. Future work using additional strain collections would be required to assess the applicability of this method
publishDate 2019
dc.date.none.fl_str_mv 2019
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
peer-reviewed
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/10256/17172
http://hdl.handle.net/10256/17172
url http://hdl.handle.net/10256/17172
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/doi/10.3389/fmicb.2019.00108
info:eu-repo/semantics/altIdentifier/eissn/1664-302X
info:eu-repo/grantAgreement/MICINN//SAF2010-15896
info:eu-repo/grantAgreement/MINECO//SAF2013-43284-P
dc.rights.none.fl_str_mv Attribution 4.0 International
http://creativecommons.org/licenses/by/4.0/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv Attribution 4.0 International
http://creativecommons.org/licenses/by/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Frontiers Media
publisher.none.fl_str_mv Frontiers Media
dc.source.none.fl_str_mv Frontiers in Microbiology, 2019, vol. 10, art.núm. 108
Articles publicats (D-B)
reponame:Recercat. Dipósit de la Recerca de Catalunya
instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
instname_str Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
reponame_str Recercat. Dipósit de la Recerca de Catalunya
collection Recercat. Dipósit de la Recerca de Catalunya
repository.name.fl_str_mv
repository.mail.fl_str_mv
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