A catalog of bacterial reference genomes from cultivated human oral bacteria

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

A catalog of bacterial reference genomes from cultivated human oral bacteria. / Li, Wenxi; Liang, Hewei; Lin, Xiaoqian; Hu, Tongyuan; Wu, Zhinan; He, Wenxin; Wang, Mengmeng; Zhang, Jiahao; Jie, Zhuye; Jin, Xin; Xu, Xun; Wang, Jian; Yang, Huanming; Zhang, Wenwei; Kristiansen, Karsten; Xiao, Liang; Zou, Yuanqiang.

In: npj Biofilms and Microbiomes, Vol. 9, No. 1, 45, 2023.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Li, W, Liang, H, Lin, X, Hu, T, Wu, Z, He, W, Wang, M, Zhang, J, Jie, Z, Jin, X, Xu, X, Wang, J, Yang, H, Zhang, W, Kristiansen, K, Xiao, L & Zou, Y 2023, 'A catalog of bacterial reference genomes from cultivated human oral bacteria', npj Biofilms and Microbiomes, vol. 9, no. 1, 45. https://doi.org/10.1038/s41522-023-00414-3

APA

Li, W., Liang, H., Lin, X., Hu, T., Wu, Z., He, W., Wang, M., Zhang, J., Jie, Z., Jin, X., Xu, X., Wang, J., Yang, H., Zhang, W., Kristiansen, K., Xiao, L., & Zou, Y. (2023). A catalog of bacterial reference genomes from cultivated human oral bacteria. npj Biofilms and Microbiomes, 9(1), [45]. https://doi.org/10.1038/s41522-023-00414-3

Vancouver

Li W, Liang H, Lin X, Hu T, Wu Z, He W et al. A catalog of bacterial reference genomes from cultivated human oral bacteria. npj Biofilms and Microbiomes. 2023;9(1). 45. https://doi.org/10.1038/s41522-023-00414-3

Author

Li, Wenxi ; Liang, Hewei ; Lin, Xiaoqian ; Hu, Tongyuan ; Wu, Zhinan ; He, Wenxin ; Wang, Mengmeng ; Zhang, Jiahao ; Jie, Zhuye ; Jin, Xin ; Xu, Xun ; Wang, Jian ; Yang, Huanming ; Zhang, Wenwei ; Kristiansen, Karsten ; Xiao, Liang ; Zou, Yuanqiang. / A catalog of bacterial reference genomes from cultivated human oral bacteria. In: npj Biofilms and Microbiomes. 2023 ; Vol. 9, No. 1.

Bibtex

@article{379c8dd23b32409fa4d0bc6722ce5d55,
title = "A catalog of bacterial reference genomes from cultivated human oral bacteria",
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.",
author = "Wenxi Li and Hewei Liang and Xiaoqian Lin and Tongyuan Hu and Zhinan Wu and Wenxin He and Mengmeng Wang and Jiahao Zhang and Zhuye Jie and Xin Jin and Xun Xu and Jian Wang and Huanming Yang and Wenwei Zhang and Karsten Kristiansen and Liang Xiao and Yuanqiang Zou",
note = "Publisher Copyright: {\textcopyright} 2023, The Author(s).",
year = "2023",
doi = "10.1038/s41522-023-00414-3",
language = "English",
volume = "9",
journal = "n p j Biofilms and Microbomes",
issn = "2055-5008",
publisher = "nature publishing group",
number = "1",

}

RIS

TY - JOUR

T1 - A catalog of bacterial reference genomes from cultivated human oral bacteria

AU - Li, Wenxi

AU - Liang, Hewei

AU - Lin, Xiaoqian

AU - Hu, Tongyuan

AU - Wu, Zhinan

AU - He, Wenxin

AU - Wang, Mengmeng

AU - Zhang, Jiahao

AU - Jie, Zhuye

AU - Jin, Xin

AU - Xu, Xun

AU - Wang, Jian

AU - Yang, Huanming

AU - Zhang, Wenwei

AU - Kristiansen, Karsten

AU - Xiao, Liang

AU - Zou, Yuanqiang

N1 - Publisher Copyright: © 2023, The Author(s).

PY - 2023

Y1 - 2023

N2 - 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.

AB - 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.

U2 - 10.1038/s41522-023-00414-3

DO - 10.1038/s41522-023-00414-3

M3 - Journal article

C2 - 37400465

AN - SCOPUS:85163819342

VL - 9

JO - n p j Biofilms and Microbomes

JF - n p j Biofilms and Microbomes

SN - 2055-5008

IS - 1

M1 - 45

ER -

ID: 359722360