바로가기메뉴

본문 바로가기 주메뉴 바로가기

logo

A report of 7 unrecorded bacterial species isolated from several Jeju soil samples in 2016

Journal of Species Research / Journal of Species Research, (E)2713-8615
2018, v.7 no.2, pp.151-160
https://doi.org/10.12651/JSR.2018.7.2.151
Ju-Young Kim
Myung Kyum Kim
Soohyun Maeng
Myung-Suk Kang
Jun Hwee Jang
  • Downloaded
  • Viewed

Abstract

Seven bacterial strains, 15J4M-1, 15J13-8, 16MFM10, 15J1-8, SR1-5-4, 15J13-6, and 15J8-11 assigned to the phylum Actinobacteria, Bacteroidetes, and Firmicutes were isolated from soil samples collected from Jeju, Korea. Phylogenetic analysis based on 16S rRNA gene sequence revealed that strains 15J4M-1, 15J13-8, 16MFM10, 15J1-8, SR1-5-4, 15J13-6, and 15J8-11 were most closely related to Bacillus selenatarsenatis SF-1T (with 99.4% similarity), Brevibacterium luteolum CF87T (99.5%), Carnobacterium iners CCUG 62000T (99.6%), Exiguobacterium profundum 10CT (99.3%), Larkinella insperata LMG 22510T (99.3%), Pseudokineococcus lusitanus CECT 7306T (99.4%), and Spirosoma endophyticum EX36T (99.3%), respectively. This is the first report of these seven species in Korea.

keywords
16S rRNA, Actinobacteria, bacterial diversity, Bacteroidetes, Firmicutes, unreported species

Reference

1.

Crapart, S., M.-L. Fardeau, J.-L. Cayo, P. Thomas, C. Sery, B. Ollivier and Y. Combet-Blanc. 2007. Exiguobacterium profundum sp. nov., a moderately thermophilic, lactic acid-producing bacterium isolated from a deep-sea hydrothermal vent. Int J Syst Evol Microbiol 57:287-292.

2.

Doetsch, R.N. 1981. Determinative methods of light microscopy. Manual of Methods for General Bacteriology, pp. 21-33. In: P. Gerhardt, R.G.E. Murray, R.N. Costilow, E.W. Nester, W.A. Wood, N.R. Krieg and G.H. Phillips (eds.), American Society for Microbiology. Washington, DC, USA.

3.

Edgar, R.C. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32:1792-1797.

4.

Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evol 39:783-791.

5.

Fries, J., S. Pfeiffer, M. Kuffner and A. Sessitsch. 2013. Spirosoma endophyticum sp. nov., isolated from Zn- and Cd-accumulating Salix caprea. Int J Syst Evol Microbiol 63:4586-4590.

6.

Gibbons, N.E. and R.G.E. Murray. 1978. Proposals concerning the higher taxa of bacteria. Int J Syst Bacteriol 28:1-6.

7.

Hall, T.A. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95-98.

8.

Jurado, V., L. Laiz, A. Ortiz-Martinez, I. Groth and C. Saiz-Jimenez. 2011. Pseudokineococcus lusitanus gen. nov., sp. nov., and reclassification of Kineococcus marinus Lee 2006 as Pseudokineococcus marinus comb. nov. Int J Syst Evol Microbiol 61:2515-2519.

9.

Kim, O.S., Y.J. Cho, K. Lee, S.H. Yoon, M. Kim, H. Na, S.C. Park, Y.S. Jeon, J.H. Lee, H. Yi, S. Won and J. Chun. 2012. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62:716-721.

10.

Kimura, M. 1983. The neutral theory of molecular evolution. Cambridge University Press, New York.

11.

Krieg, A.J., E.B. Rankin, D. Chan, O. Razorenova, S. Fernandez and A.J. Giaccia. 2010. Regulation of the histone demethylase JMJD1A by hypoxia-inducible factor 1 alpha enhances hypoxic gene expression and tumor growth. Mol Cell Biol 30:344-353.

12.

Roller, C., W. Ludwig and K.H. Schleifer. 1992. Gram-positive bacteria with a high DNA G+C content are characterized by a common insertion within their 23S rRNA genes. J Genet Microbiol 138:1167-1175.

13.

Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406-425.

14.

Schrempf, H. 2001. Recognition and degradation of chitin by streptomycetes. Antonie Van Leeuwenhoek. 79:285-289.

15.

Smith, M.A., N.E. Woodley, D.H. Janzen, W. Hallwachs and P.D.N. Hebert. 2006. DNA barcodes reveal cryptic host-specifcity within the presumed polyphagous members of a genus of parasitoid flies. Nat Acad Sci, USA 103:3657-3662.

16.

Snauwaert, I., B. Hoste, K. De Bruyne, K. Peeters, L. De Vuyst, A. Willems and P. Vandamme. 2013. Carnobacterium iners sp. nov., a psychrophilic, lactic acid-producing bacterium from the littoral zone of an Antarctic pond. Int J Syst Evol Microbiol 63:1370-1375.

17.

Stackebrandt, S.P. 2000. The prokaryotes: an evolving electronic resource for the microbiological community. Springer-Verlag, New York, NY.

18.

Tamura, K., D. Peterson, N. Peterson, G. Stecher, M. Ne and S. Kumar. 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731-2739.

19.

Thomas, F., J.-H. Hehemann, E. Rebuffet, M. Czjzek and G. Michel. 2011. Environmental and gut Bacteroidetes: the food connection. Front Microbiol 2:93.

20.

Turnbaugh, P.J., M. Hamady, T. Yatsunenko, B.L. Cantarel, A. Duncan, R.E. Ley, M.L. Sogin, W.J. Jones, B.A. Roe, J.P. Affourtit, M. Egholm, B. Henrissat, A.C. Heath, R. Knight and J.I. Gordon. 2009. A core gut microbiome in obese and lean twins. Nat 457:480-484.

21.

Vancanneyt, M., O. Nedashkovskaya, C. Snauwaert, S. Mortier, K. Vandemeulebroecke, B. Hoste, P. Dawyndt, G.M. Frolova, D. Janssens and J. Swings. 2006. Larkinella insperata gen. nov., sp. nov., a bacterium of the phylum 'Bacteroidetes' isolated from water of a steam generator. Int J Syst Evol Microbiol 56:237-241.

22.

Ventura, M., C. Canchaya, A. Tauch, G. Chandra, G.F. Fitzgerald, K.F. Chater and D. van Sinderen. 2007. Genomics of Actinobacteria: Tracing the Evolutionary History of an Ancient Phylum. Microbiol Mol Biol 71:495:548.

23.

Wauters, G., V. Avesani, K. Laffineur, J. Charlier, M. Janssens, B. Van Bosterhaut and M. Delmeee. 2003. Brevibacterium lutescens sp. nov., from human and environmental samples. Int J Syst Evol Microbiol 53:1321-1325.

24.

Weisburg, W.G., S.M. Barns, D.A. Pelletier and D.J. Lane. 1991. 16S ribosomal DNA amplifcation for phylogenetic study. J Bacteriol 173:697-703.

25.

Wragg, P., L. Randall and A. Whatmor. 2014. Comparison of Biolog GEN III MicroStation semi-automated bacterial identifcation system with matrix-assisted laser desorption ionization-time of fight mass spectrometry and 16S ribosomal RNA gene sequencing for the identifcation of bacteria of veterinary interest. J Microbiol Methods 105:16-21.

26.

Yamamura, S., M. Yamashita, N. Fujimoto, M. Kuroda, M. Kashiwa, K. Sei, M. Fujita and M. Lke. 2007. Bacillus selenatarsenatis sp. nov., a selenate- and arsenate-reducing bacterium isolated from the effluent drain of a glass-manufacturing plant. Int J Syst Evol Microbiol 57:1060-1064.

Journal of Species Research