- KOREAN
- E-ISSN2713-8615
- KCI
E-ISSN : 2713-8615
A report of 42 unrecorded bacterial species belonging to the Alphaproteobacteria in Korea
Che Ok Jeon
Seung Bum Kim
Kwang-Yeop Jahng
JANGCHEON CHO
Joh Ki Seong
Cha Chang Jun
Chi-Nam Seong
Bae Jin-Woo
Im Wan-Taek
Abstract
As a subset study to discover indigenous prokaryotic species in Korea, a total of 42 bacterial strains assigned to the class Alphaproteobacteria were isolated from diverse environmental habitats including plant roots, ginseng soil, forest soil, marsh, mud flat, freshwater, and seawater. From the high 16S rRNA gene sequence similarity (>99.1%) and formation of a robust phylogenetic clade with the closest species, it was determined that each strain belonged to each independent and predefined bacterial species. There is no official report that these 42 species have been described in Korea; therefore 4 species of 1 genera in the order Caulobacterales, 18 species of 10 genera in the order Rhizobiales, 7 species of 5 genera in the order Sphingomonadales and 13 species of 11 genera in the order Rhodobacterales within the Alphaproteobacteria are reported for alphaproteobacterial species found in Korea. Gram reaction, colony and cell morphology, basic biochemical characteristics, isolation source, and strain IDs are also described in the species description section.
- keywords
- 16S rRNA, Alphaproteobacteria, bacterial diversity, indigenous prokaryotic species in Korea, unrecorded species
Reference
Alsmark, C.M., A.C. Frank, E.O. Karlberg, B.A. Legault, D.H. Ardell, B. Canback, A.S. Eriksson, A.K. Naslund, S.A. Handley, M. Huvet, B. La Scola, M. Holmberg and S.G. Andersson. 2004. The louse-borne human pathogen Bartonella quintana is a genomic derivative of the zoonotic agent Bartonella henselae. Proceedings of National Academy of Science of the United States of America 101:9716-9721.
Andersson, S.G., O. Karlberg, B. Canbäck and C.G. Kurland. 2003. On the origin of mitochondria: a genomics perspective. Philosphical Transactions of the Royal Society London B: Biololocal Science 358:165-177.
Ferla, M.P., J.C. Thrash, S.J. Giovannoni and W.M. Patrick. 2013. New rRNA gene-based phylogenies of the Alphaproteobacteria provide perspective on major groups, mitochondrial ancestry and phylogenetic instability. PLoS ONE 8:e83383.
Felsenstein, J. 2002. PHYLIP (phylogeny inference package), version 3.6a, Seattle: Department of genetics, University of Washington, Seattle, WA, USA.
Fredricks, D.N. 2006. Introduction to the Rickettsiales and other intracellular prokaryotes. In the prokaryotes: a handbook on the biology of Bacteria. Springer, New York, USA.
Giovannoni, S.J., H.J. Tripp, S. Givan, M. Podar, K.L. Vergin, D. Baptista, L. Bibbs, J. Eads, T.H. Richardson, M. Noordewier, M.S. Rappe, J.M. Short, J.C. Carrington and E.J. Mathur. 2005. Genome streamlining in a cosmopolitan oceanic bacterium. Science 309:1242-1245.
Gray, M.W., G. Burger and B.F. Lang. 1999. Mitochondrial evolution. Science 283:1476-1481.
Kaneko, T., Y. Nakamura, S. Sato, K. Minamisawa, T. Uchiumi, S. Sasamoto, A. Watanabe, K. Idesawa, M. Iriguchi, K. Kawashima, M. Kohara, M. Matsumoto, S. Shimpo, H. Tsuruoka, T. Wada, M. Yamada and S. Tabata. 2002. Complete genomic sequence of nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum USDA110. DNA Ressearch 9:189-197.
Kaneko, T., Y. Nakamura, S. Sato, E. Asamizu, T. Kato, S. Sasamoto, A. Watanabe, K. Idesawa, A. Ishikawa, K. Kawashima, T. Kimura, Y. Kishida, C. Kiyokawa, M. Kohara, M. Matsumoto, A. Matsuno, Y. Mochizuki, S. Nakayama, N. Nakazaki, S. Shimpo, M. Sugimoto, C. Takeuchi, M. Yamada and S. Tabata. 2000. Complete genome structure of the nitrogen-fixing symbiotic bacterium Mesorhizobium loti. DNA Ressearch 7:331-338.
Kersters, K., P. Devos, M. Gillis, J. Swings, P. Vandamme and E. Stackebrandt. 2006. Introduction to the Proteobacteria. In the prokaryotes: a handbook on the biology of bacteria. Springer, New York, USA.
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. International Journal of Systematic and Evolutionary Microbiology 62:716-721.
Kimura, M. 1983. The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press, Cambridge, New York.
Lee, H.J., S.E. Jeong, M.-S. Cho, S.H. Kim, S.-S. Lee, B.-H. Lee and C.O. Jeon. 2014. Flavihumibacter solisilvae sp. nov., isolated from forest soil. International Journal of Systematic and Evolutionary Microbiology 64:2897-2901.
Moreno, E. and I. Moriyon. 2006. The Genus Brucella. In the prokaryotes: a handbook on the biology of bacteria. Springer, New York, USA.
Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4:406-425.
Skorpil, P. and W.J. Broughton. 2006. Molecular interactions between Rhizobium and legumes. Progress Mololcular Subcell Biolology 41:143-164.
Thompson, J.D., T.J. Gibson, 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 25:4876-4882.
- Downloaded
- Viewed
- 0KCI Citations
- 0WOS Citations