ArticleThe ISME journal2015
Meta-omics uncover temporal regulation of pathways across oral microbiome genera during in vitro sugar metabolism.
Article in The ISME journal, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers, 1 of them a synthesis that pooled it.
What it found
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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.
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.
Who cites it
45 citing papers in PubMed, 1 synthesis or guideline pooled it, 79 citations in OpenAlex.
- Salivary and pellicle proteome: A datamining analysis.Scientific reports · 2016Pooled it
- Metabolic Profile of Supragingival Plaque Exposed to Arginine and Fluoride.Journal of dental research · 2019Trial
- Modulating Oral Microbiota to Prevent Dental Caries: A Microbial Ecology Approach.Dentistry journal · 2026Review
- DNA and RNA-based amplicon sequencing of paired supragingival and dentin lesion plaque in children with severe early childhood caries.International journal of oral science · 2026Article
- MetaTracer: A nucleotide alignment-based framework for high-resolution taxonomic and transcript assignment in metatranscriptomic data.bioRxiv : the preprint server for biology · 2026Article
- Oral Dysbiosis and Neuroinflammation: Implications for Alzheimer's, Parkinson's and Mood Disorders.Microorganisms · 2026Review
- Strain-level genomic variation ofPeerJ · 2026Article
- Inferring diet, disease and antibiotic resistance from ancient human oral microbiomes.Microbial genomics · 2024Review
- The Evolving Microbiome of Dental Caries.Microorganisms · 2024Review
- Illuminating the oral microbiome and its host interactions: recent advancements in omics and bioinformatics technologies in the context of oral microbiome research.FEMS microbiology reviews · 2023Review
- Novel bacterial proteolytic and metabolic activity associated with dental erosion-induced oral dysbiosis.Microbiome · 2023Article
- SVep1, a temperate phage of human oral commensalFrontiers in microbiology · 2023Article
- Inside out: Relations between the microbiome, nutrition, and eye health.Experimental eye research · 2022Review
- Oral Microbiome and Dental Caries Development.Dentistry journal · 2022Review
- Candidate Phyla Radiation, an Underappreciated Division of the Human Microbiome, and Its Impact on Health and Disease.Clinical microbiology reviews · 2022Review
- Acquisition of the arginine deiminase system benefits epiparasitic Saccharibacteria and their host bacteria in a mammalian niche environment.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Functional signaturesJournal of oral microbiology · 2022Article
- Current State and Challenges of the Global Outcomes of Dental Caries Research in the Meta-Omics Era.Frontiers in cellular and infection microbiology · 2022Review
- The oral microbiome: Role of key organisms and complex networks in oral health and disease.Periodontology 2000 · 2021Review
- Modified SHI medium supports growth of a disease-state subgingival polymicrobial community in vitro.Molecular oral microbiology · 2021Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
11 authors at 3 institutions in 1 country.
Funding
Abstract
Dental caries, one of the most globally widespread infectious diseases, is intimately linked to pH dynamics. In supragingival plaque, after the addition of a carbohydrate source, bacterial metabolism decreases the pH which then subsequently recovers. Molecular mechanisms supporting this important homeostasis are poorly characterized in part due to the fact that there are hundreds of active species in dental plaque. Only a few mechanisms (for example, lactate fermentation, the arginine deiminase system) have been identified and studied in detail. Here, we conducted what is to our knowledge, the first full transcriptome and metabolome analysis of a diverse oral plaque community by using a functionally and taxonomically robust in vitro model system greater than 100 species. Differential gene expression analyses from the complete transcriptome of 14 key community members revealed highly varied regulation of both known and previously unassociated pH-neutralizing pathways as a response to the pH drop. Unique expression and metabolite signatures from 400 detected metabolites were found for each stage along the pH curve suggesting it may be possible to define healthy and diseased states of activity. Importantly, for the maintenance of healthy plaque pH, gene transcription activity of known and previously unrecognized pH-neutralizing pathways was associated with the genera Lactobacillus, Veillonella and Streptococcus during the pH recovery phase. Our in vitro study provides a baseline for defining healthy and disease-like states and highlights the power of moving beyond single and dual species applications to capture key players and their orchestrated metabolic activities within a complex human oral microbiome model.
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What OpenQuestion holds
Registered trials
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.