A catalog of bacterial reference genomes from cultivated human oral bacteria

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  • Wenxi Li
  • Hewei Liang
  • Xiaoqian Lin
  • Tongyuan Hu
  • Zhinan Wu
  • Wenxin He
  • Mengmeng Wang
  • Jiahao Zhang
  • Jie, Zhuye
  • Xin Jin
  • Xun Xu
  • Jian Wang
  • Huanming Yang
  • Wenwei Zhang
  • Kristiansen, Karsten
  • Liang Xiao
  • Yuanqiang Zou
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.
OriginalsprogEngelsk
Artikelnummer45
Tidsskriftnpj Biofilms and Microbiomes
Vol/bind9
Udgave nummer1
Antal sider13
ISSN2055-5008
DOI
StatusUdgivet - 2023

Bibliografisk note

Funding Information:
This work was supported by grants from National Key Research and Development Program of China (No. 2018YFC1313801) and Natural Science Foundation of Guangdong Province, China (No. 2019B020230001). We thank the colleagues at BGI-Shenzhen for sample collection, and bacteria preservation, and China National GeneBank (CNGB) Shenzhen for DNA extraction, library construction, and sequencing. We also thank Xiaohuan Jing from CNGB for his assistance in deposit of bacterial strains. This work was supported by the Henan Supercomputer Center.

Funding Information:
This work was supported by grants from National Key Research and Development Program of China (No. 2018YFC1313801) and Natural Science Foundation of Guangdong Province, China (No. 2019B020230001). We thank the colleagues at BGI-Shenzhen for sample collection, and bacteria preservation, and China National GeneBank (CNGB) Shenzhen for DNA extraction, library construction, and sequencing. We also thank Xiaohuan Jing from CNGB for his assistance in deposit of bacterial strains. This work was supported by the Henan Supercomputer Center.

Publisher Copyright:
© 2023, The Author(s).

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