ArticleNPJ biofilms and microbiomes2023
A catalog of bacterial reference genomes from cultivated human oral bacteria.
Article in NPJ biofilms and microbiomes, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 30 citations in OpenAlex.
- Oral microbiome diversity and composition before and after chemotherapy treatment in pediatric oncology patients.BMC oral health · 2025Trial
- OAPGC: a high-quality oral and airway prokaryotic genome catalog for enhanced ecological resolution and disease inference.NPJ biofilms and microbiomes · 2026Article
- Complete genome sequence of Streptococcus sp. strain KHUD_013 isolated from the human buccal mucosa.BMC genomic data · 2026Article
- Distinct signatures in the human gut and oral microbiomes of gastric cancer.Cell reports. Medicine · 2026Article
- Complete genome sequence of Streptococcus shenyangsis isolated from buccal mucosa.BMC genomic data · 2026Article
- Tagatose attenuates streptococcus mutans-induced dental caries by modulating oral microbiota and inflammatory responses in mice.BMC microbiology · 2026Article
- Microbial mechanisms and therapeutic interventions in the periodontitis-inflammatory bowel disease axis: a comprehensive review.Journal of oral microbiology · 2026Review
- Cultivation and sequencing of microbiota members unveil the functional potential of yak gut microbiota.mSystems · 2025Article
- Integrating metagenomics and cultivation unveils oral phage diversity and potential impact on hosts.NPJ biofilms and microbiomes · 2025Article
- A deformable SIS/HA composite hydrogel coaxial scaffold promotes alveolar bone regeneration after tooth extraction.Bioactive materials · 2025Article
- Tongue coating microbial communities vary in children with Henoch-Schönlein purpura.Scientific reports · 2025Article
- Novel potential biomarkers for predicting childhood caries via metagenomic analysis.Frontiers in cellular and infection microbiology · 2025Article
- Efficiently constructing complete genomes with CycloneSEQ to fill gaps in bacterial draft assemblies.GigaByte (Hong Kong, China) · 2025Article
- Taxonomic diversity in the global wheat phyllosphere mycobiome - a meta analysis.Frontiers in plant science · 2025Article
- Review
- Revealing an unprecedented diversity of episymbiotic Saccharibacteria in a high-quality genome collection.NPJ biofilms and microbiomes · 2024Article
- MosAIC: An annotated collection of mosquito-associated bacteria with high-quality genome assemblies.PLoS biology · 2024Article
- A single amplified genome catalog reveals the dynamics of mobilome and resistome in the human microbiome.Microbiome · 2024Article
- GDPF: a data resource for the distribution of prokaryotic protein families across the global biosphere.Nucleic acids research · 2024Article
- Multiomics Analysis Reveals Significant Disparities in the Oral Microbiota and Metabolites Between Pregnant Women with and without Periodontitis.Infection and drug resistance · 2024Article
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Authors and funding
17 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The oral cavity harbors highly diverse communities of microorganisms. However, the number of isolated species and high-quality genomes is limited. Here we present a Cultivated Oral Bacteria Genome Reference (COGR), comprising 1089 high-quality genomes based on large-scale aerobic and anaerobic cultivation of human oral bacteria isolated from dental plaques, tongue, and saliva. COGR covers five phyla and contains 195 species-level clusters of which 95 include 315 genomes representing species with no taxonomic annotation. The oral microbiota differs markedly between individuals, with 111 clusters being person-specific. Genes encoding CAZymes are abundant in the genomes of COGR. Members of the Streptococcus genus make up the largest proportion of COGR and many of these harbor entire pathways for quorum sensing important for biofilm formation. Several clusters containing unknown bacteria are enriched in individuals with rheumatoid arthritis, emphasizing the importance of culture-based isolation for characterizing and exploiting oral bacteria.
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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.