A report of four unrecorded Proteobacteria species isolated from soil in Korea

  • Lee, Ki-Eun (Biological Resources Utilization Department, National Institute of Biological Resources) ;
  • Kim, Ju-Young (Department of Bio & Environmental Technology, College of Natural Science, Seoul Women's University) ;
  • Jang, Jun Hwee (Department of Bio & Environmental Technology, College of Natural Science, Seoul Women's University) ;
  • Maeng, Soohyun (Department of Public Health Sciences, Graduate School, Korea University) ;
  • Srinivasan, Sathiyaraj (Department of Bio & Environmental Technology, College of Natural Science, Seoul Women's University) ;
  • Subramani, Gayathri (Department of Bio & Environmental Technology, College of Natural Science, Seoul Women's University) ;
  • Kim, Myung Kyum (Department of Bio & Environmental Technology, College of Natural Science, Seoul Women's University) ;
  • Kang, Myung-Suk (Biological Resources Utilization Department, National Institute of Biological Resources)
  • Received : 2018.06.22
  • Accepted : 2019.01.07
  • Published : 2019.05.31


In 2015 and 2017, the National Institute of Biological Resources has isolated four unrecorded prokaryotic species designated as R-1-5, R-2-13, R-2-1, and R-1-8 from the peatland soil of Yongneup. Phylogenetic analysis based on 16S rRNA gene sequence similarity determined the four strains (R-1-5, R-2-13, R-2-1, R-1-8) were most closely related to Curvibacter lanceolatus (99.93%), Massilia brevitalea (98.7%), Pseudomonas lini (99.54%), and Pseudomonas vancouverensis (99.93%), respectively. The four unrecorded strains belong to the phylum Proteobacteria, in which the genera Curvibacter and Massilia are assigned to the class Betaproteobacteria, and the genus Pseudomonas to the class Gammaproteobacteria. Since there are no publications or official reports on these four strains, these four species are new records to Korea. The strains were further characterized by Gram reaction, colony and cell morphology, basic biochemical properties, and phylogenetic position. Descriptive information of the four unrecorded species is provided.

JOSRB5_2019_v8n2_191_f0001.png 이미지

Fig. 1. Transmission electron micrographs of the strains isolated in this study. Strains: (A) Curvibacter lanceolatus R-1-5; (B) Massilia brevitalea R-2-13; (C) Pseudomonas lini R-2-1; and (D) Pseudomonas vancouverensis R-1-8.

JOSRB5_2019_v8n2_191_f0002.png 이미지

Fig. 2. Neighbor-joining phylogenetic tree based on 16S rRNA sequences shows the relationship between the strains isolated in this study and their relatives in the genera Curvibacter (A), Massilia (B) and Pseudomonas (C). Bootstrap values (>70%) are shown above nodes for the neighbor-joining. Scale bar: 0.01 changes per nucleotide.

JOSRB5_2019_v8n2_191_f0003.png 이미지

Fig. 2. Continued.

Table 1. Summary of strains isolatèd belonging to the Proteobacteria and their taxonomic affliations.

JOSRB5_2019_v8n2_191_t0001.png 이미지


Supported by : National Institute of Biological Resources


  1. Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791.
  2. Garrity, G.M., J.A. Bell and T. Lilburn. 2005. Phylum XIV. Proteobacteria phyl. nov. class III. Gammaproteobacteria class. nov. In: Brenner, D.J., Krieg, N.R., Staley, J.T and Garrity G.M (ed.), Bergey's Manual of Systematic Bacteriology (2nd ed) vol. 2, p. 1.
  3. Gupta, R.S. 2000. The natural evolutionary relationships among Prokaryotes. Journal of Critical Reviews in Microbiology 26(2):111-131.
  4. Itavaara, M., H. Salavirta, K. Marjamaa and T. Ruskeeniemi. 2016. Geomicrobiology and Metagenomics of Terrestrial Deep Subsurface Microbiomes. Advances in Applied Microbiology 94:1-77.
  5. Kim, M.K., C.N. Seong, K. Jahng, C.J. Cha, K.S. Joh, J.W. Bae, J.C. Cho, W.T. Im and S.B. Kim. 2017. Report of 21 unrecorded bacterial species in Korea belonging to Betaproteobacteria and Epsilonproteobacteria. Journal of Species Research 6(1):15-24.
  6. Li, L., E.K. Park, M.O. Park and B.H. Koo. 2014. Ecosystem Analysis for Little Yongneup, Baby Yongneup in Daeam-san in Korea. Journal of the Korea Society of Environmental Restoration Technology 17(4):43-56.
  7. Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4:406-425.
  8. Shin, N.R., T.W. Whon and J.W. Bae. 2015. Proteobacteria: microbial signature of dysbiosis in gut microbiota. Trends in Biotechnology 33(9):496-503.
  9. Tamura, K., G. Stecher, D. Peterson, A. Filipski and S. Kumar. 2013. MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Molecular Biology and Evolution 30:2725-2729.
  10. Thompson, J.D., T.J. Gibson, F. Plewniak, F. Plewniak, F. Jeanmougin and D.G. Higgins. 1997. The CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 25(24):4876-4882.
  11. Williams, K.P., J.J. Gillespie, B.W. Sobral, E.K. Nordberg, E.E. Snyder, J.M. Shallom and A.W. Dickerman. 2010. Phylogeny of Gammaproteobacteria. Journal of Bacteriology 192:2305-2314.
  12. Williams, K.P. and D.P. Kelly. 2013. Proposal for new class within the phylum Proteobacteria, Acidithiobacilla claais nov., with the type order Acidithiobacillales, and emended description of the class Gammaproteobacteria. International Journal of Systematic and Evolutionary Microbiology 63:2901-2906.
  13. Woese, C.R. 1987. Bacterial evolution. Microbiological Reviews 51(2):221-271.
  14. Yutin, N., P. Puigbo, E.V. Koonin and Y.I. Wolf. 2012. Phylogenomics of prokaryotic ribosomal proteins. PLoS ONE 7:e36972.