Browse > Article
http://dx.doi.org/10.12651/JSR.2016.5.2.241

A report on 33 unrecorded bacterial species of Korea isolated in 2014, belonging to the class Gammaproteobacteria  

Lim, Yeonjung (Department of Biological Sciences, Inha University)
Joung, Yochan (Department of Biological Sciences, Inha University)
Nam, Gi Gyun (Department of Biological Sciences, Inha University)
Jahng, Kwang-Yeop (Department of Life Sciences, Chonbuk National University)
Kim, Seung-Bum (Department of Microbiology, Chungnam National University)
Joh, Ki-seong (Department of Bioscience and Biotechnology, Hankuk University of Foreign Studies)
Cha, Chang-Jun (Department of Systems Biotechnology, Chung-Ang University)
Seong, Chi-Nam (Department of Biology, Sunchon National University)
Bae, Jin-Woo (Department of Biology, Kyung Hee University)
Im, Wan-Taek (Department of Biotechnology, Hankyong National University)
Cho, Jang-Cheon (Department of Biological Sciences, Inha University)
Publication Information
Journal of Species Research / v.5, no.2, 2016 , pp. 241-253 More about this Journal
Abstract
In 2014, as a subset study to discover indigenous prokaryotic species in Korea, a total of 33 bacterial strains assigned to the class Gammaproteobacteria were isolated from diverse environmental samples collected from soil, tidal flat, freshwater, seawater, oil-contaminated soil, and guts of animal. From the high 16S rRNA gene sequence similarity (>98.5%) 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 33 species have been described in Korea; therefore, 1 strain of the Aeromonadales, 6 strains of the Alteromonadales, 3 strains of the Chromatiales, 5 strains of the Enterobacteriales, 4 strains of the Oceanospirillales, 11 strains of the Pseudomonadales, and 3 strains of the Xanthomonadales within the Gammaproteobacteria are described for unreported bacterial species in Korea. Gram reaction, colony and cell morphology, basic biochemical characteristics, and isolation sources are also described in the species description section.
Keywords
16S rRNA; bacterial diversity; Gammaproteobacteria; unreported species;
Citations & Related Records
Times Cited By KSCI : 1  (Citation Analysis)
연도 인용수 순위
1 Kersters, K., P. De Vos, M. Gillis, J. Swings, P. Vandamme and E. Stackebrandt. 2006. Introduction to the Proteobacteria. In The prokaryotes, pp. 3-37. Springer.
2 Kim, A., S. Lee, K. Han and T. Ahn. 2012a. Arenimonas aquaticum sp. nov., a member of the Gammaproteobacterium, isolated from a freshwater reservoir. Int. J. Syst. Evol. Microbiol. 50:354-358.
3 Kim, O., Y. Cho, K. Lee, S. Yoon, M. Kim, H. Na, S. Park, Y.S. Jeon, J.H. Lee, H. Yi, S. Won and J. Chun. 2012b. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int. J. Syst. Evol. Microbiol. 62:716-721.   DOI
4 Parte, A.C. 2014. LPSN-list of prokaryotic names with standing in nomenclature. Nucleic Acids Res. 42:D613-6.   DOI
5 Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
6 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.   DOI
7 Wang, Y., H.F. Sheng, Y. He, J.Y. Wu, Y.X. Jiang, N.F. Tam, and H.W. Zhou. 2012. Comparison of the levels of bacterial diversity in freshwater, intertidal wetland, and marine sediments by using millions of illumina tags. Appl. Environ. Microbiol. 78:8264-8271.   DOI
8 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. J. Bacteriol. 192:2305-2314.   DOI
9 Yan, S., M. Yu, Y. Wang, C. Shen and X. Zhang. 2011. Catenovulum agarivorans gen. nov., sp. nov., a peritrichously flagellated, chain-forming, agar-hydrolysing gammaproteobacterium from seawater. Int. J. Syst. Evol. Microbiol. 61:2866-2873.   DOI
10 Zhang, J., X. Zhang, Y. Liu, S. Xie and Y. Liu. 2014. Bacterioplankton communities in a high-altitude freshwater wetland. Ann. Microbiol. 64:1405-1411.   DOI
11 Cho, J.C. and S.J. Giovannoni. 2004. Cultivation and growth characteristics of a diverse group of oligotrophic marine Gammaproteobacteria. Appl. Environ. Microbiol. 70:432-440.   DOI
12 Du, Z., D. Zhang, S. Liu, J. Chen, X. Tian, Z. Zhang, H. Liu and G. Chen. 2009. Gilvimarinus chinensis gen. nov., sp. nov., an agar-digesting marine bacterium within the class Gammaproteobacteria isolated from coastal seawater in Qingdao, China. Int. J. Syst. Evol. Microbiol. 59:2987-2990.   DOI
13 Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791.   DOI
14 Garrity, G., D. Brenner, N. Krieg and J. Staley. 2005. Bergey's Manual of Sytematic Bacteriology. Volume 2 (The Proteobacteria), part B (The Gammaproteobacteria). New York: Springer.
15 Giovannoni, S.J., E.F. DeLong, T.M. Schmidt and N.R. Pace. 1990. Tangential flow filtration and preliminary phylogenetic analysis of marine picoplankton. Appl. Environ. Microbiol. 56:2572-2575.
16 Jeon, Y., K. Lee, S. Park, B. Kim, Y. Cho, S. 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.   DOI
17 Keller-Costa, T., A. Jousset, L. van Overbeek, J.D. van Elsas and R. Costa. 2014. The freshwater sponge Ephydatia fluviatilis harbours diverse Pseudomonas species (Gammaproteobacteria, Pseudomonadales) with broad-spectrum antimicrobial activity. PLoS One 9: e88429.   DOI