Evidence map›Paper›PMID 25973955›Full record

ArticleMolecular oral microbiology2015

Functional profiling in Streptococcus mutans: construction and examination of a genomic collection of gene deletion mutants.

R G Quivey, E J Grayhack, R C Faustoferri, C J Hubbard, J D Baldeck, A S Wolf, M E MacGilvray, P L Rosalen, K Scott-Anne, B Santiago and 3 more

Abstract read
In one paragraph

Article in Molecular oral microbiology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.

0numbers the graph read from it
0cells of the map it votes in
39citing papers in PubMed
6.0field-weighted citation impact, top 4% 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

39 citing papers in PubMed, 47 citations in OpenAlex.

  1. Compendium of RNA modifications for bacterial stress adaptation.Microbiology and molecular biology reviews : MMBR · 2026
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  4. Epigenomics identifies three sources of DNA methylation inbioRxiv : the preprint server for biology · 2026
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  15. Transposon mutagenesis in oralJournal of oral microbiology · 2022
    Review
  16. Article
  17. Article
  18. Article
  19. Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

13 authors at 2 institutions in 1 country.

R G QuiveyDepartment of Microbiology and Immunology, University of Rochester, Rochester, NY, USA.
E J GrayhackDepartment of Biochemistry and Biophysics, University of Rochester, Rochester, NY, USA.
R C FaustoferriCenter for Oral Biology, University of Rochester, Rochester, NY, USA.
C J HubbardCenter for Oral Biology, University of Rochester, Rochester, NY, USA.
J D BaldeckDepartment of Microbiology and Immunology, University of Rochester, Rochester, NY, USA.
A S WolfDepartment of Biochemistry and Biophysics, University of Rochester, Rochester, NY, USA.
M E MacGilvrayCenter for Oral Biology, University of Rochester, Rochester, NY, USA.
P L RosalenCenter for Oral Biology, University of Rochester, Rochester, NY, USA.
K Scott-AnneCenter for Oral Biology, University of Rochester, Rochester, NY, USA.
B SantiagoCenter for Oral Biology, University of Rochester, Rochester, NY, USA.
S GopalDepartment of Biological Sciences, Rochester Institute of Technology, Rochester, NY, USA.
J PayneDepartment of Biochemistry and Biophysics, University of Rochester, Rochester, NY, USA.
R E MarquisDepartment of Microbiology and Immunology, University of Rochester, Rochester, NY, USA.
University of Rochester · USRochester Institute of Technology · US

Funding

Oxidative Stress Responses in Oral StreptococciR01DE013683 · NIDCR · UNIVERSITY OF ROCHESTER · PI QUIVEY, ROBERT G · 2000 to 2019
$6.2M
Training Program in Oral ScienceT90DE021985 · NIDCR · UNIVERSITY OF ROCHESTER · PI OVITT, CATHERINE, YULE, DAVID I · 2011 to 2021
$5.6M
Fitness profiling of the Streptococcus mutans genomeR01DE017425 · NIDCR · UNIVERSITY OF ROCHESTER · PI QUIVEY, ROBERT G · 2007 to 2011
$3.5M
Low pH-mediated membrane biosynthesis in S. mutans.R01DE017157 · NIDCR · UNIVERSITY OF ROCHESTER · PI QUIVEY, ROBERT G · 2006 to 2010
$1.8M
NIDCR NIH HHS DE017157NIDCR NIH HHS DE017425NIDCR NIH HHS R01 DE013683NIDCR NIH HHS R01 DE017157NIDCR NIH HHS R01 DE017425NIDCR NIH HHS T90 DE-021985NIDCR NIH HHS T90 DE021985
6 · The paper itself

Abstract

A collection of tagged deletion mutant strains was created in Streptococcus mutans UA159 to facilitate investigation of the aciduric capability of this oral pathogen. Gene-specific barcoded deletions were attempted in 1432 open reading frames (representing 73% of the genome), and resulted in the isolation of 1112 strains (56% coverage) carrying deletions in distinct non-essential genes. As S. mutans virulence is predicated upon the ability of the organism to survive an acidic pH environment, form biofilms on tooth surfaces, and out-compete other oral microflora, we assayed individual mutant strains for the relative fitness of the deletion strain, compared with the parent strain, under acidic and oxidative stress conditions, as well as for their ability to form biofilms in glucose- or sucrose-containing medium. Our studies revealed a total of 51 deletion strains with defects in both aciduricity and biofilm formation. We have also identified 49 strains whose gene deletion confers sensitivity to oxidative damage and deficiencies in biofilm formation. We demonstrate the ability to examine competitive fitness of mutant organisms using the barcode tags incorporated into each deletion strain to examine the representation of a particular strain in a population. Co-cultures of deletion strains were grown either in vitro in a chemostat to steady-state values of pH 7 and pH 5 or in vivo in an animal model for oral infection. Taken together, these data represent a mechanism for assessing the virulence capacity of this pathogenic microorganism and a resource for identifying future targets for drug intervention to promote healthy oral microflora.

Indexed as

Gene DeletionGenome, BacterialMutationAnimalsBacterial ProteinsBiofilmsDNA Barcoding, TaxonomicGene Expression Regulation, BacterialGenetic FitnessGenomicsHydrogen-Ion ConcentrationMouthOxidative StressRatsStreptococcus mutansBacterial Proteinsgenomicspathogenesisphysiology

Identifiers

PMID25973955
PMCPMC4636983
OpenAlexW1566647207

What OpenQuestion holds

Textmetadata
LicenceTDM
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.