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dc.contributor.authorWillner, Dana
dc.contributor.authorLow, Serene
dc.contributor.authorSteen, Jason A
dc.contributor.authorGeorge, Narelle
dc.contributor.authorNimmo, Graeme R
dc.contributor.authorSchembri, Mark A
dc.contributor.authorHugenholtz, Philip
dc.date.accessioned2017-08-31T12:30:51Z
dc.date.available2017-08-31T12:30:51Z
dc.date.issued2014
dc.identifier.issn2150-7511
dc.identifier.doi10.1128/mBio.01064-13
dc.identifier.urihttp://hdl.handle.net/10072/66472
dc.description.abstractUrinary tract infections (UTIs) are one of the most commonly acquired bacterial infections in humans, and uropathogenic Escherichia coli strains are responsible for over 80% of all cases. The standard method for identification of uropathogens in clinical laboratories is cultivation, primarily using solid growth media under aerobic conditions, coupled with morphological and biochemical tests of typically a single isolate colony. However, these methods detect only culturable microorganisms, and characterization is phenotypic in nature. Here, we explored the genotypic identity of communities in acute uncomplicated UTIs from 50 individuals by using culture-independent amplicon pyrosequencing and whole-genome and metagenomic shotgun sequencing. Genus-level characterization of the UTI communities was achieved using the 16S rRNA gene (V8 region). Overall UTI community richness was very low in comparison to other human microbiomes. We strain-typed Escherichia-dominated UTIs using amplicon pyrosequencing of the fimbrial adhesin gene, fimH. There were nine highly abundant fimH types, and each UTI sample was dominated by a single type. Molecular analysis of the corresponding clinical isolates revealed that in the majority of cases the isolate was representative of the dominant taxon in the community at both the genus and the strain level. Shotgun sequencing was performed on a subset of eight E. coli urine UTI and isolate pairs. The majority of UTI microbial metagenomic sequences mapped to isolate genomes, confirming the results obtained using phylogenetic markers. We conclude that for the majority of acute uncomplicated E. coli-mediated UTIs, single cultured isolates are diagnostic of the infection.
dc.description.peerreviewedYes
dc.description.publicationstatusYes
dc.format.extent1500079 bytes
dc.format.mimetypeapplication/pdf
dc.languageEnglish
dc.publisherAmerican Society for Microbiology
dc.publisher.placeUnited States
dc.relation.ispartofstudentpublicationN
dc.relation.ispartofpagefrome01064-13-1
dc.relation.ispartofpagetoe01113-13-10
dc.relation.ispartofissue2
dc.relation.ispartofjournalmBio
dc.relation.ispartofvolume5
dc.rights.retentionY
dc.subject.fieldofresearchMedical and Health Sciences not elsewhere classified
dc.subject.fieldofresearchMicrobiology
dc.subject.fieldofresearchcode119999
dc.subject.fieldofresearchcode0605
dc.titleSingle clinical isolates from acute uncomplicated urinary tract infections are representative of dominant in situ populations
dc.typeJournal article
dc.type.descriptionC1 - Articles
dc.type.codeC - Journal Articles
dcterms.licensehttp://creativecommons.org/licenses/by-nc-sa/3.0/
gro.rights.copyright© The Author(s) 2014. This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial-ShareAlike 3.0 (CC BY-NC-SA 3.0) License (http://creativecommons.org/licenses/by-nc-sa/3.0/), which permits unrestricted noncommercial use, distribution, and reproduction in any medium, provided the original author and source are credited.
gro.hasfulltextFull Text
gro.griffith.authorNimmo, Graeme R.


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