Evidence map›Paper›PMID 29378882›Full record

ArticleJournal of bacteriology2018

Bacteriophages of the Urinary Microbiome.

Taylor Miller-Ensminger, Andrea Garretto, Jonathon Brenner, Krystal Thomas-White, Adriano Zambom, Alan J Wolfe, Catherine Putonti

Open access · bronzeAbstract read
In one paragraph

Article in Journal of bacteriology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
66citing papers in PubMed, 1 pooled it
11.3field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

66 citing papers in PubMed, 1 synthesis or guideline pooled it, 111 citations in OpenAlex.

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  13. InducedFrontiers in microbiology · 2024
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  14. An exploratoryMicrobiome research reports · 2024
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  19. Four NovelViruses · 2023
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6 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

7 authors at 1 institution in 1 country.

Taylor Miller-EnsmingerBioinformatics Program, Loyola University Chicago, Chicago, Illinois, USA.
Andrea GarrettoBioinformatics Program, Loyola University Chicago, Chicago, Illinois, USA.
Jonathon BrennerDepartment of Computer Science, Loyola University Chicago, Chicago, Illinois, USA.
Krystal Thomas-WhiteDepartment of Microbiology and Immunology, Loyola University Chicago, Maywood, Illinois, USA.
Adriano ZambomDepartment of Mathematics and Statistics, Loyola University Chicago, Chicago, Illinois, USA.
Alan J WolfeDepartment of Microbiology and Immunology, Loyola University Chicago, Maywood, Illinois, USA.
Catherine PutontiBioinformatics Program, Loyola University Chicago, Chicago, Illinois, USA cputonti@luc.edu.ORCID https://orcid.org/0000-0003-3049-5991
Loyola University Chicago · US

Funding

The Female Urinary Microbiome and Urinary IncontinenceR01DK104718 · NIDDK · LOYOLA UNIVERSITY CHICAGO · PI BRUBAKER, LINDA, WOLFE, ALAN J · 2016 to 2020
$3.1M
NIDDK NIH HHS R01 DK104718
6 · The paper itself

Abstract

Bacterial viruses (bacteriophages) play a significant role in microbial community dynamics. Within the human gastrointestinal tract, for instance, associations among bacteriophages (phages), microbiota stability, and human health have been discovered. In contrast to the gastrointestinal tract, the phages associated with the urinary microbiota are largely unknown. Preliminary metagenomic surveys of the urinary virome indicate a rich diversity of novel lytic phage sequences at an abundance far outnumbering that of eukaryotic viruses. These surveys, however, exclude the lysogenic phages residing within the bacteria of the bladder. To characterize this phage population, we examined 181 genomes representative of the phylogenetic diversity of bacterial species within the female urinary microbiota and found 457 phage sequences, 226 of which were predicted with high confidence. Phages were prevalent within the bladder bacteria: 86% of the genomes examined contained at least one phage sequence. Most of these phages are novel, exhibiting no discernible sequence homology to sequences in public data repositories. The presence of phages with substantial sequence similarity within the microbiota of different women supports the existence of a core community of phages within the bladder. Furthermore, the observed variation between the phage populations of women with and without overactive bladder symptoms suggests that phages may contribute to urinary health. To complement our bioinformatic analyses, viable phages were cultivated from the bacterial isolates for characterization; a novel coliphage was isolated, which is obligately lytic in the laboratory strain

Indexed as

MicrobiotaBacteriaBacteriophagesColiphagesComputational BiologyFemaleGenome, BacterialHigh-Throughput Nucleotide SequencingHumansPhylogenyPregnancyProphagesSequence Analysis, DNAUrinary BladderUrinary Bladder, OveractiveUrinary Tractbacteriabacteriophagesmicrobiomeprophageurinary tractvirus

Identifiers

PMID29378882
PMCPMC5847656
OpenAlexW2786277984

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.