바로가기메뉴

본문 바로가기 주메뉴 바로가기

logo

E-ISSN : 2713-8615

Article Contents

Prev Next
e-Submission

Vol.7 No.1

Citation Share

A report on 24 unrecorded bacterial species of Korea isolated in 2016, belonging to the orders Rhizobiales and Sphingomonadales in the class Alphaproteobacteria

Journal of Species Research / Journal of Species Research, (E)2713-8615
2018, v.7 no.1, pp.13-23
https://doi.org/10.12651/JSR.2018.7.1.013
JOUNG YO CHAN
JANGCHEON CHO
Im Wan-Taek
Che Ok Jeon
Joh Ki Seong
Seung Bum Kim
Kim Wonyong
LEE SOON DONG
Cha Chang Jun
JOUNG, Y. C. , JANGCHEON, C. , Im, W. , Che, O. J. , Joh, K. S. , Seung, B. K. , Kim, W. , LEE, S. D. , & Cha, C. J. (2018). A report on 24 unrecorded bacterial species of Korea isolated in 2016, belonging to the orders Rhizobiales and Sphingomonadales in the class Alphaproteobacteria. Journal of Species Research, 7(1), 13-23, https://doi.org/10.12651/JSR.2018.7.1.013

Abstract

In 2016, as a part of the research program ‘Survey of Korean Indigenous Species’, diverse environmental samples were collected from various sources of freshwater, seawater, soil, wetland, reclaimed land, sand, pine forest, plant root, ginseng field, solar saltern, and caves. Thousands of bacterial strains were isolated from the diverse samples and identified based on 16S rRNA gene sequence analyses. The present study, as a phylogenetic subset of the primary research program, reports 24 unrecorded bacterial species in Korea that belong to the orders Rhizobiales and Sphingomonadales in the class Alphaproteobacteria. Based on the high 16S rRNA gene sequence similarities (>98.8%) and formation of a robust phylogenetic clade with the closest type species, it was determined that each strain belonged to each independent and predefined bacterial species. There is no official report that these 24 bacterial species have been described in Korea; therefore, 10 species of nine genera in the order Rhizobiales and 14 species of seven genera in the order Sphingomonadales are described for unreported alphaproteobacterial species in Korea. Gram reaction, colony and cell morphology, biochemical properties, and isolation sources are also provided in the species description section.

keywords
bacterial diversity, Rhizobiales, Sphingomonadales, unrecorded species

Reference

1.

Alves, L.M.C., J.A.M. de Souza, A. de Mello Varani and E.G. de Macedo Lemos. 2014. The family Rhizobiaceae. In: E. Rosenberg, E.F. DeLong, S. Lory, E. Stackebrandt and F. Thompson (eds.), The Prokaryotes: Alphaproteobacteria and Betaproteobacteria (4th ed.), Springer, Berlin, Heidelberg. pp. 419-437.

2.

Becking, J.H. 2006. The genus Beijerinckia. In: M. Dworkin, S. Falkow, E. Rosenberg, K.-H. Schleifer and E. Stackebrandt (eds.), The Prokaryotes (3rd ed.), Springer, New York, pp. 151-162.

3.

Chimetto, L.A., A.P.B. Moreira and F. Thompson. 2014. The family Erythrobacteraceae. In: E. Rosenberg, E.F. De-Long, S. Lory, E. Stackebrandt and F. Thompson (eds.), The Prokaryotes: Alphaproteobacteria and Betaproteobacteria (4th ed.), Springer, Berlin, Heidelberg. pp. 213-235.

4.

Felsenstein, J. 1981. Evolutionary trees from DNA sequences: a maximum likelihood approach. J. Mol. Evol. 17:368-376.

5.

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

6.

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

7.

Fitch, W.M. 1971. Toward defining the course of evolution: minimum change for a specific tree topology. Syst. Zool. 20:406-416.

8.

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.

9.

Glaeser, S. and P. Kampfer. 2014. The family Sphingomonadaceae. In: E. Rosenberg, E.F. DeLong, S. Lory, E. Stackebrandt and F. Thompson (eds.), The Prokaryotes: Alphaproteobacteria and Betaproteobacteria (4th ed.), Springer, Berlin, Heidelberg. pp. 641-707.

10.

Green, P.N. 1992. The genus Methylobacterium. In: A. Balows, H.G. Truper, M. Dworkin, W. Harder and K.-H. Schleifer (eds.), The Prokaryotes (2nd ed.), Springer, New York. pp. 2342-2349.

11.

Jeon, Y.S., K. Lee, S.C. Park, B.S. Kim, Y.J. Cho, S.M. Ha and J. Chun. 2014. EzEditor: a versatile sequence alignment editor for both rRNA- and protein-coding genes. Int. J. Syst. Evol. Microbiol. 64:689-691.

12.

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.

13.

Kosako, Y., E. Yabuuchi, T. Naka, N. Fujiwara and K. Kobayashi. 2000. Proposal of Sphingomonadaceae fam. nov., consisting of Sphingomonas Yabuuchi et al. 1990, Erythrobacter Shiba and Shimidu 1982, Erythromicrobium Yurkov et al. 1994, Porphyrobacter Fuerst et al. 1993, Zymomonas Kluyver and van Niel 1936, and Sandaracinobacter Yurkov et al. 1997, with the type genus Sphingomonas Yabuuchi et al. 1990. Microbiol. Immunol. 44:563-575.

14.

Parte, A.C. 2014. LP SN - list of prokaryotic names with standing in nomenclature. Nucleic Acids Res. 42:613-616.

15.

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

16.

Tamura, K., G. Stecher, D. Peterson, A. Filipski and S. Kumar. 2013. MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Mol. Biol. Evol. 30:2725-2729.

Journal of Species Research

e-Submission OA Policy