ArticleThe ISME journal2014
Phylogenetic and functional gene structure shifts of the oral microbiomes in periodontitis patients.
Article in The ISME journal, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 108 papers, 3 of them syntheses that pooled it.
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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.
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Who cites it
108 citing papers in PubMed, 3 syntheses or guidelines pooled it, 177 citations in OpenAlex.
- The Effect of Non-Surgical Periodontal Therapy on Subgingival Microbiota: A Systematic Review and Meta-Analysis.Journal of periodontal research · 2025Pooled it
- Bacteria of healthy periodontal tissues as candidates of probiotics: a systematic review.European journal of medical research · 2024Pooled it
- Pooled it
- Variations in oral microbiota associated with oral cancer.Scientific reports · 2017Trial
- Cetylpyridinium chloride mouth rinses alleviate experimental gingivitis by inhibiting dental plaque maturation.International journal of oral science · 2016Trial
- Microbiota-based Signature of Gingivitis Treatments: A Randomized Study.Scientific reports · 2016Trial
- Shotgun Metagenomic Analysis Reveals Taxonomic and Functional Transitions in the Salivary Microbiome During Periodontal Disease Progression.Journal of clinical periodontology · 2026Observational
- Characterising oral microbial signatures for periodontal disease in the NHANES population.Acta odontologica Scandinavica · 2026Article
- Comparative characterization reveals conserved and divergent ecological traits of oral corynebacteria.Microbiology spectrum · 2026Article
- The Interplay Between Lifestyle and Oral/Faecal Microbial Profiles Among Periodontal Disease Patients: A Cross-Sectional Study.Journal of clinical periodontology · 2026Article
- Integration of periodontal pathogens and inflammatory mediators in saliva as biomarkers for periodontitis.Frontiers in cellular and infection microbiology · 2026Article
- Review
- Characteristics of Subgingival Plaque Microbiome in Japanese Older Adults With Healthy Gingiva.Journal of clinical periodontology · 2025Article
- Oral microbiome, periodontal disease and systemic bone-related diseases in the era of homeostatic medicine.Journal of advanced research · 2025Review
- Longitudinal host-microbiome dynamics of metatranscription identify hallmarks of progression in periodontitis.Microbiome · 2025Article
- Advancing periodontitis microbiome research: integrating design, analysis, and technology.Frontiers in cellular and infection microbiology · 2025Review
- Meta-omics reveals subgingival plaque reconstruction dynamics.Journal of oral microbiology · 2025Article
- The Oral Microbiome: A Key Determinant of Oral Health.Advances in experimental medicine and biology · 2025Review
- Salivary microbiome variations in type 2 diabetes mellitus patients with different stages of periodontitis.BMC oral health · 2024Article
- Pathogenicity ofMicroorganisms · 2024Article
48 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
18 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Determining the composition and function of subgingival dental plaque is crucial to understanding human periodontal health and disease, but it is challenging because of the complexity of the interactions between human microbiomes and human body. Here, we examined the phylogenetic and functional gene differences between periodontal and healthy individuals using MiSeq sequencing of 16S rRNA gene amplicons and a specific functional gene array (a combination of GeoChip 4.0 for biogeochemical processes and HuMiChip 1.0 for human microbiomes). Our analyses indicated that the phylogenetic and functional gene structure of the oral microbiomes were distinctly different between periodontal and healthy groups. Also, 16S rRNA gene sequencing analysis indicated that 39 genera were significantly different between healthy and periodontitis groups, and Fusobacterium, Porphyromonas, Treponema, Filifactor, Eubacterium, Tannerella, Hallella, Parvimonas, Peptostreptococcus and Catonella showed higher relative abundances in the periodontitis group. In addition, functional gene array data showed that a lower gene number but higher signal intensity of major genes existed in periodontitis, and a variety of genes involved in virulence factors, amino acid metabolism and glycosaminoglycan and pyrimidine degradation were enriched in periodontitis, suggesting their potential importance in periodontal pathogenesis. However, the genes involved in amino acid synthesis and pyrimidine synthesis exhibited a significantly lower relative abundance compared with healthy group. Overall, this study provides new insights into our understanding of phylogenetic and functional gene structure of subgingival microbial communities of periodontal patients and their importance in pathogenesis of periodontitis.
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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.