DOI QR코드

DOI QR Code

A report of 36 unrecorded bacterial species belonging to the phyla Actinomycetota, Bacillota, Bacteroidota, Deinococcota, and Pseudomonadota isolated in Republic of Korea

  • Che-Ok Jeon (Department of Life Science, Chung-Ang University) ;
  • Wonyong Kim (Department of Microbiology, Chung-Ang University College of Medicine) ;
  • Jin-Woo Bae (Department of Biology, Kyung Hee University) ;
  • Chi-Nam Seong (Department of Biology, Sunchon National University) ;
  • Wan-Taek Im (Department of Biotechnology, Hankyong National University) ;
  • Seung-Bum Kim (Department of Microbiology, Chungnam National University) ;
  • Jang-Cheon Cho (Department of Biological Sciences, Inha University) ;
  • Myung Kyum Kim (Department of Bio & Environmental Technology, Seoul Women's University) ;
  • Chang-Jun Cha (Department of Biotechnology, Chung-Ang University) ;
  • Taegun Seo (Department of Life Science, Dongguk University-Seoul) ;
  • Jung-Hoon Yoon (Department of Food Science and Biotechnology, Sungkyunkwan University)
  • Received : 2023.10.16
  • Accepted : 2023.10.24
  • Published : 2023.11.30

Abstract

As part of a comprehensive investigation of indigenous prokaryotic species in the Republic of Korea, 37 bacterial strains belonging to 36 species were isolated from diverse environmental habitats. These strains were assigned to five phyla, namely Deinococcota, Actinomycetota, Bacillota, Bacteroidota, and Pseudomonadota. Each strain was identified based on 16S rRNA gene sequence similarity (>98.7%) and the formation of definite phylogenetic clades with their closest reported species. Among isolates, there is one species belonging to the phylum Deinococcota, five species belonging to the phylum Actinomycetota, four species belonging to the phylum Bacillota, nine species belonging to the phylum Bacteroidota, and 17 species belonging to the phylum Pseudomonadota (comprising eight species of the class Alphaproteobacteria, one species of the class Betaproteobacteria, and eight species of the class Gammaproteobacteria). Based on 16S rRNA gene sequence analysis, each strain was assigned to independent and predefined bacterial species. Since there were no published or official reports regarding these 36 species in the Republic of Korea, they have been reported as unrecorded species in the Republic of Korea. Their Gram stain, cell morphology, colony, basic biochemical characteristics, strain ID, and isolation source of each species are described in the species descriptions.

Keywords

Acknowledgement

This study was supported by the research grant "The Survey of Republic of Korean Indigenous Species" from the National Institute of Biological Resources (NIBR) of the Ministry of Environment in the Republic of Korea.

References

  1. Cabanillas-Beltran, H., E. LLausas-Magana, R. Romero, A. Espinoza, A. Garcia-Gasca, M. Nishibuchi, M. Ishibashi and B. Gomez-Gil. 2006. Outbreak of gastroenteritis caused by the pandemic Vibrio parahaemolyticus O3: K6 in Mexico. FEMS Microbiol. Lett. 265:76-80. https://doi.org/10.1111/j.1574-6968.2006.00475.x
  2. Felsenstein, J. 1993. PHYLIP (phylogeny inference package) version 3.5. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  3. Gao, B. and R.S. Gupta. 2012. Phylogenetic framework and molecular signatures for the main clades of the phylum Actinobacteria. Microbiol. Mol. Biol. Rev. 76:66-112. https://doi.org/10.1128/MMBR.05011-11
  4. Griffiths, E. and R.S. Gupta. 2007. Identification of signature proteins that are distinctive of the Deinococcus-Thermus phylum. Int. J. Syst. Evol. Microbiol. 10:201-208.
  5. Jantsch, J., D. Chikkaballi and M. Hensel. 2011. Cellular aspects of immunity to intracellular Salmonella enterica. Immunol. Rev. 240:185-195. https://doi.org/10.1111/j.1600-065X.2010.00981.x
  6. Jukes, T.H. and C.R. Cantor. 1969. Evolution of protein molecules, Mammalian Protein Metabolism. Edited by H.N. Munro. New York, Academic Press 3:21-132.
  7. Lee, E.B., S. Park, W. Kim and J.-H. Yoon. 2023. Roseobacter insulae sp. nov. and Loktanella gaetbuli sp. nov., isolated from tidal flats in the Yellow Sea in Korea. Int. J. Syst. Evol. Microbiol. 73:005794.
  8. Oren, A. and G.M. Garrity. 2021. Valid publication of the names of forty-two phyla of prokaryotes. Int. J. Syst. Evol. Microbiol. 71:005056.
  9. Parte, A.C., J.C. Carbasse, J.P. Meier-Kolthoff, L.C. Reimer and M. Goker. 2020. List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. Int. J. Syst. Evol. Microbiol. 70:5607-5612. https://doi.org/10.1099/ijsem.0.004332
  10. Rajilic-Stojanovic, M. and W.M. de Vos. 2014. The first 1000 cultured species of the human gastrointestinal microbiota. FEMS Microbiol. Rev. 38:996-1047. https://doi.org/10.1111/1574-6976.12075
  11. Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
  12. Thomas, F., J.-H. Hehemann, E. Rebuffet, M. Czjzek and G. Michel. 2011. Environmental and Gut Bacteroidetes: The Food Connection. Front. Microbiol. 2:93.
  13. Thompson, J.D., D.G. Higgins and T.J. Gibson. 1994. Clustal W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680. https://doi.org/10.1093/nar/22.22.4673
  14. Wolf, M., T. Muller, T. Dandekar and J.D. Pollack. 2004. Phylogeny of Firmicutes with special reference to Mycoplasma (Mollicutes) as inferred from phosphoglycerate kinase amino acid sequence data. Int. J. Syst. Evol. Microbiol. 54:871-875. https://doi.org/10.1099/ijs.0.02868-0
  15. Yoon, S.H., S.M. Ha, S. Kwon, J. Lim, Y. Kim, H. Seo and J. Chun. 2017. Introducing EzBioCloud: A taxonomically united database of 16S rRNA and whole genome assemblies. Int. J. Syst. Evol. Microbiol. 67:1613-1617. https://doi.org/10.1099/ijsem.0.001755