Microbial metagenome of urinary tract infection.

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Version: Final published version
License: CC BY 4.0
Serval ID
serval:BIB_AECBEE909C27
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Microbial metagenome of urinary tract infection.
Journal
Scientific reports
Author(s)
Moustafa A., Li W., Singh H., Moncera K.J., Torralba M.G., Yu Y., Manuel O., Biggs W., Venter J.C., Nelson K.E., Pieper R., Telenti A.
ISSN
2045-2322 (Electronic)
ISSN-L
2045-2322
Publication state
Published
Issued date
12/03/2018
Peer-reviewed
Oui
Volume
8
Number
1
Pages
4333
Language
english
Notes
Publication types: Journal Article
Publication Status: epublish
Abstract
Urine culture and microscopy techniques are used to profile the bacterial species present in urinary tract infections. To gain insight into the urinary flora, we analyzed clinical laboratory features and the microbial metagenome of 121 clean-catch urine samples. 16S rDNA gene signatures were successfully obtained for 116 participants, while metagenome sequencing data was successfully generated for samples from 49 participants. Although 16S rDNA sequencing was more sensitive, metagenome sequencing allowed for a more comprehensive and unbiased representation of the microbial flora, including eukarya and viral pathogens, and of bacterial virulence factors. Urine samples positive by metagenome sequencing contained a plethora of bacterial (median 41 genera/sample), eukarya (median 2 species/sample) and viral sequences (median 3 viruses/sample). Genomic analyses suggested cases of infection with potential pathogens that are often missed during routine urine culture due to species specific growth requirements. While conventional microbiological methods are inadequate to identify a large diversity of microbial species that are present in urine, genomic approaches appear to more comprehensively and quantitatively describe the urinary microbiome.
Keywords
Bacteria/classification, Bacteria/genetics, Bacteria/isolation & purification, DNA, Ribosomal/genetics, Eukaryota/classification, Eukaryota/genetics, Eukaryota/isolation & purification, Female, Humans, Male, Metagenome, Phylogeny, Sequence Analysis, DNA, Urinary Tract Infections/microbiology, Urinary Tract Infections/parasitology, Urinary Tract Infections/urine, Urinary Tract Infections/virology, Viruses/classification, Viruses/genetics, Viruses/isolation & purification
Pubmed
Web of science
Open Access
Yes
Create date
15/03/2018 19:04
Last modification date
24/09/2019 6:11
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