Comparative genomics reveals new single-nucleotide polymorphisms that can assist in identification of adherent-invasive Escherichia coli
dc.contributor.author
dc.date.accessioned
2019-09-24T08:02:36Z
dc.date.available
2019-09-24T08:02:36Z
dc.date.issued
2018-02-09
dc.identifier.issn
2045-2322
dc.identifier.uri
dc.description.abstract
Adherent-invasive Escherichia coli (AIEC) have been involved in Crohn’s disease (CD). Currently, AIEC are identified by time-consuming techniques based on in vitro infection of cell lines to determine their ability to adhere to and invade intestinal epithelial cells as well as to survive and replicate within macrophages. Our aim was to find signature sequences that can be used to identify the AIEC pathotype. Comparative genomics was performed between three E. coli strain pairs, each pair comprised one AIEC and one non-AIEC with identical pulsotype, sequence type and virulence gene carriage. Genetic differences were further analysed in 22 AIEC and 28 non-AIEC isolated from CD patients and controls. The strain pairs showed similar genome structures, and no gene was specific to AIEC. Three single nucleotide polymorphisms displayed different nucleotide distributions between AIEC and non-AIEC, and four correlated with increased adhesion and/or invasion indices. Here, we present a classification algorithm based on the identification of three allelic variants that can predict the AIEC phenotype with 84% accuracy. Our study corroborates the absence of an AIEC-specific genetic marker distributed across all AIEC strains. Nonetheless, point mutations putatively involved in the AIEC phenotype can be used for the molecular identification of the AIEC pathotype
dc.description.sponsorship
This work was funded by the Universitat de Girona project MPCUdG2016–009 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. CCF was recipient of an IF grant from the Universitat de Girona
(IFUDG2015/12)
dc.format.mimetype
application/pdf
dc.language.iso
eng
dc.publisher
Nature Publishing Group
dc.relation
info:eu-repo/grantAgreement/MICINN//SAF2010-15896/ES/ESCHERICHIA COLI ADHERENTE INVASIVA (AIEC): PREVALENCIA EN OTRAS ENFERMEDADES INTESTINALES DISTINTAS DE CROHN Y DETERMINANTES GENICOS IMPLICADOS EN SU PATOGENICIDAD./
info:eu-repo/grantAgreement/MINECO//SAF2013-43284-P/ES/DETERMINANTES GENETICOS IMPLICADOS EN EL PATOTIPO ESCHERICHIA COLI ADHERENTE INVASIVA (AIEC) PARA SU IDENTIFICACION EN LA ENFERMEDAD DE CROHN./
dc.relation.isformatof
Reproducció digital del document publicat a: https://doi.org/10.1038/s41598-018-20843-x
dc.relation.ispartof
Scientific Reports, 2018, vol. 8, art.núm. 2695
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Articles publicats (D-B)
dc.rights
Attribution 4.0 International
dc.rights.uri
dc.title
Comparative genomics reveals new single-nucleotide polymorphisms that can assist in identification of adherent-invasive Escherichia coli
dc.type
info:eu-repo/semantics/article
dc.rights.accessRights
info:eu-repo/semantics/openAccess
dc.type.version
info:eu-repo/semantics/publishedVersion
dc.identifier.doi
dc.identifier.idgrec
028078
dc.contributor.funder
dc.type.peerreviewed
peer-reviewed
dc.relation.ProjectAcronym