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Cited by 226Oral microbiology and periodontitis researchGut microbiota and healthMicrobial Community Ecology and Physiology

The DOI matches its Crossref record; 54 of the 54 references it cites were found in a registry or an index.

Inter-personal diversity and temporal dynamics of dental, tongue, and salivary microbiota in the healthy oral cavity

Open access
Hall, Michael W., Singh, Natasha, Ng, Kester F., Lam, David K., Goldberg, Michael B., Tenenbaum, Howard C., Neufeld, Josh D., G. Beiko, Robert, Senadheera, Dilani B.·2017·npj Biofilms and Microbiomes
DOI 10.1038/s41522-016-0011-0PMC PMC5445578
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Abstract

Oral microbes form a complex and dynamic biofilm community, which is subjected to daily host and environmental challenges. Dysbiosis of the oral biofilm is correlated with local and distal infections and postulating a baseline for the healthy core oral microbiota provides an opportunity to examine such shifts during the onset and recurrence of disease. Here we quantified the daily, weekly, and monthly variability of the oral microbiome by sequencing the largest oral microbiota time-series to date, covering multiple oral sites in ten healthy individuals. Temporal dynamics of salivary, dental, and tongue consortia were examined by high-throughput 16S rRNA gene sequencing over 90 days, with four individuals sampled additionally 1 year later. Distinct communities were observed between dental, tongue, and salivary samples, with high levels of similarity observed between the tongue and salivary communities. Twenty-six core OTUs that classified within Streptococcus, Fusobacterium, Haemophilus, Neisseria, Prevotella , and Rothia genera were present in ≥95% samples and accounted for ~65% of the total sequence data. Phylogenetic diversity varied from person to person, but remained relatively stable within individuals over time compared to inter-individual variation. In contrast, the composition of rare microorganisms was highly variable over time, within most individuals. Using machine learning, an individual's oral microbial assemblage could be correctly assigned to them with 88–97% accuracy, depending on the sample site; 83% of samples taken a year after initial sampling could be confidently traced back to the source subject.

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Crossref · 10.1038/s41522-016-0011-0

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Figures

Fig. 1 NMDS ordinations of samples showing sample dissimilarity patterns under the Bray–Curtis measure. a All samples colored by oral site (stress value: 0.16). b Tongue and saliva samples colored by oral site (stress value: 0.20). c All samples colored by subject number (stress value: 0.16). d Supragingival plaque samples colored by subject number (stress value: 0.16). e Tongue and saliva samples colored by subject number (stress value: 0.20)
Fig. 1 NMDS ordinations of samples showing sample dissimilarity patterns under the Bray–Curtis measure. a All samples colored by oral site (stress value: 0.16). b Tongue and saliva samples colored by oral site (stress value: 0.20). c All samples colored by subject number (stress value: 0.16). d Supragingival plaque samples colored by subject number (stress value: 0.16). e Tongue and saliva samples colored by subject number (stress value: 0.20)CC BY · PubMed Central
Fig. 2 Boxplots of phylogenetic diversity measures. a PD values grouped by sample site (*** = significant at p < 0.001 by pairwise Wilcox test with false discovery rate correction). b PD values grouped by sample site and subject
Fig. 2 Boxplots of phylogenetic diversity measures. a PD values grouped by sample site (*** = significant at p < 0.001 by pairwise Wilcox test with false discovery rate correction). b PD values grouped by sample site and subjectCC BY · PubMed Central
Fig. 3 Venn diagram showing the taxonomic classifications of some of the core OTUs present within ≥95% of the samples in the indicated subsets of oral sites. For example, Bulleidia moorei was found in ≥95% of tongue plaque and saliva samples, but <95% of supragingival plaque samples, while Rothia dentocariosa was found in ≥95% of the samples from all three sites. This list is not exhaustive; see Supplementary File 1 for a complete list
Fig. 3 Venn diagram showing the taxonomic classifications of some of the core OTUs present within ≥95% of the samples in the indicated subsets of oral sites. For example, Bulleidia moorei was found in ≥95% of tongue plaque and saliva samples, but <95% of supragingival plaque samples, while Rothia dentocariosa was found in ≥95% of the samples from all three sites. This list is not exhaustive; see Supplementary File 1 for a complete listCC BY · PubMed Central
Fig. 4 Lag plots of beta-diversity measures between sample pairs against the time elapsed between sample dates. Yellow lines are the linear least squares regression fits with 95% confidence bands and blue lines are the Loess locally weighted regression curves with 95% confidence bands. a Bray–Curtis distances between saliva samples from subject 7. b Sorensen distances between saliva samples from subject 7. c Sorensen distances between saliva samples from subject 1. d Sorensen distances between saliva samples from subject 10
Fig. 4 Lag plots of beta-diversity measures between sample pairs against the time elapsed between sample dates. Yellow lines are the linear least squares regression fits with 95% confidence bands and blue lines are the Loess locally weighted regression curves with 95% confidence bands. a Bray–Curtis distances between saliva samples from subject 7. b Sorensen distances between saliva samples from subject 7. c Sorensen distances between saliva samples from subject 1. d Sorensen distances between saliva samples from subject 10CC BY · PubMed Central

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Research works printed but not linked: 1

  1. Marsh, P. D., Martin, M. V., Lewis, M. A. & Williams, D. Oral Microbiol. (Elsevier Health Sciences, 2009).

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Metadata

Authors
Hall, M. W., Singh, N., Ng, K. F., Lam, D. K., Goldberg, M. B., Tenenbaum, H. C., Neufeld, J. D., G. Beiko, R., & Senadheera, D. B.
Affiliations
  • Dalhousie University (CA)
  • University of Toronto (CA)
  • Mount Sinai Hospital (CA)
  • University of Waterloo (CA)
Corresponding author
Senadheera, Dilani B.
ORCID
Venue
npj Biofilms and Microbiomes
Publisher
Springer Science and Business Media LLC
Published
2017-01-26
Volume
3
Issue
1
Pages
2-2
ISSN
2055-5008 (ISSN-L)
DOI
10.1038/s41522-016-0011-0
PMC
PMC5445578
OpenAlex
W2581739967
Cited by
226
References
54
Citations by year
2026: 17 · 2025: 19 · 2024: 29 · 2023: 19 · 2022: 22 · 2021: 37 · 2020: 42 · 2019: 18 · 2018: 19 · 2017: 4
FWCI
31.32
Type
journal article
Language
en
Open access
Licence
Locations
  • npj Biofilms and Microbiomes (publishedVersion, cc-by)
  • Europe PMC (PubMed Central) (publishedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
Funders
  • Canada Research Chairs
  • Canadian Institutes of Health Research (115192)
  • Natural Sciences and Engineering Research Council of Canada
Topics
  • Health Sciences › Dentistry › Periodontics › Oral microbiology and periodontitis research
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
  • Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
Keywords
oral microbiota, temporal dynamics, salivary microbiota, dental plaque microbiota, tongue microbiota, interindividual variability, core microbiome, dental plaque, dysbiosis, phylogenetic diversity, microbial community stability

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