Evidence map›Paper›PMID 30482830›Full record

ArticlemBio2018

Supragingival Plaque Microbiome Ecology and Functional Potential in the Context of Health and Disease.

Josh L Espinoza, Derek M Harkins, Manolito Torralba, Andres Gomez, Sarah K Highlander, Marcus B Jones, Pamela Leong, Richard Saffery, Michelle Bockmann, Claire Kuelbs and 5 more

Abstract read
In one paragraph

Article in mBio, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 60 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
60citing papers in PubMed, 2 pooled it
–field-weighted citation impact
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

60 citing papers in PubMed, 2 syntheses or guidelines pooled it.

  1. Pooled it
  2. Exploring Oral Microbiome in Healthy Infants and Children: A Systematic Review.International journal of environmental research and public health · 2022
    Pooled it
  3. Trial
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  12. Synergistic action of specialized metabolites from divergent biosynthesis in the human oral microbiome.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

15 authors.

Josh L EspinozaDepartment of Microbial and Environmental Genomics, J. Craig Venter Institute, La Jolla, California, USA.
Derek M HarkinsDepartments of Human Biology and Genomic Medicine, J. Craig Venter Institute, Rockville, Maryland, USA.
Manolito TorralbaDepartments of Human Biology and Genomic Medicine, J. Craig Venter Institute, La Jolla, California, USA.
Andres GomezDepartments of Human Biology and Genomic Medicine, J. Craig Venter Institute, La Jolla, California, USA.
Sarah K HighlanderDepartments of Human Biology and Genomic Medicine, J. Craig Venter Institute, La Jolla, California, USA.
Marcus B JonesHuman Longevity Institute, La Jolla, California, USA.
Pamela LeongMurdoch Children's Research Institute and Department of Pediatrics, University of Melbourne, Royal Children's Hospital, Parkville, VIC, Australia.
Richard SafferyMurdoch Children's Research Institute and Department of Pediatrics, University of Melbourne, Royal Children's Hospital, Parkville, VIC, Australia.
Michelle BockmannSchool of Dentistry, The University of Adelaide, Adelaide, SA, Australia.
Claire KuelbsDepartments of Human Biology and Genomic Medicine, J. Craig Venter Institute, La Jolla, California, USA.
Jason M InmanDepartments of Human Biology and Genomic Medicine, J. Craig Venter Institute, La Jolla, California, USA.
Toby HughesSchool of Dentistry, The University of Adelaide, Adelaide, SA, Australia.
Jeffrey M CraigCentre for Molecular and Medical Research, School of Medicine, Deakin University, Geelong, VIC, Australia.
Karen E NelsonDepartments of Human Biology and Genomic Medicine, J. Craig Venter Institute, Rockville, Maryland, USA.
Chris L DupontDepartment of Microbial and Environmental Genomics, J. Craig Venter Institute, La Jolla, California, USA cdupont@jcvi.org.

Funding

Metagenomics of the Microbiome in Oral Health and DiseaseR01DE019665 · NIDCR · J. CRAIG VENTER INSTITUTE, INC. · PI NELSON, KAREN E. · 2010 to 2014
$3.4M
Computational Studies of Virus-host Interactions Using Metagenomics Data and ApplicationsR01GM120624 · NIGMS · UNIVERSITY OF SOUTHERN CALIFORNIA · PI AHLGREN, NATHAN, SUN, FENGZHU · 2017 to 2020
$1.7M
NIDCR NIH HHS R01 DE019665NIGMS NIH HHS R01 GM120624
6 · The paper itself

Abstract

To address the question of how microbial diversity and function in the oral cavities of children relates to caries diagnosis, we surveyed the supragingival plaque biofilm microbiome in 44 juvenile twin pairs. Using shotgun sequencing, we constructed a genome encyclopedia describing the core supragingival plaque microbiome. Caries phenotypes contained statistically significant enrichments in specific genome abundances and distinct community composition profiles, including strain-level changes. Metabolic pathways that are statistically associated with caries include several sugar-associated phosphotransferase systems, antimicrobial resistance, and metal transport. Numerous closely related previously uncharacterized microbes had substantial variation in central metabolism, including the loss of biosynthetic pathways resulting in auxotrophy, changing the ecological role. We also describe the first complete

Indexed as

MicrobiotaAustraliaBacteriaChildChild, PreschoolDental CariesDental PlaqueHumansMetabolic Networks and PathwaysMetagenomicsSequence Analysis, DNAmetabolismmetagenomicsmicrobial ecologyoral microbiologyStreptococcus

Identifiers

PMID30482830
PMCPMC6282201

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.