Description of 42 unrecorded bacterial species in Korea, belonging to the class Alphaproteobacteria

Qing Mei Liu (Hankyoung National University)
김승범 (Chungnam National University)
Jung-Hoon Yoon (Sungkyunkwan University)
KISEONG JOH (Hankuk University of Foreign Studies)
성치남 (순천대학교)
Che Ok Jeon (Chung-Ang University)
김원용 (중앙대학교)
김명겸 (서울여자대학교)
임완택 (한경대학교)

Qing, M. L. , 김승범, Jung-Hoon, Y. , KISEONG, J. , 성치남, Che, O. J. , 김원용, 김명겸, & 임완택. (2019). . Journal of Species Research, 8(4), 351-364.

복사

Abstract

Here we describe indigenous prokaryotic species in Korea, a total of 42 bacterial strains affiliated to the class Alphaproteobacteria isolated from various environmental samples: fermented vinegar, sea water, beach sand, fresh water, salt flats, moss, algae, activated sludge, and soil. From the high 16S rRNA gene sequence similarity (>98.7%) and formation of a robust phylogenetic clade with the closest species, it was determined that each strain belonged to predefined bacterial species. There is no official report that these 42 species included in Alphaproteobacteria in Korea: 15 species of 6 genera in the order Rhodospirillales, 12 species of 10 genera in the order Rhizobiales, 10 species of 8 genera in the order Rhodobacterales, 4 species of 4 genera in the order Sphingomonadales and 1 species of 1 genus in the order Caulobacterales. 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

참고문헌

Brenner, D.J., N.R. Krieg and J.T. Staley. 2005. The Proteobacteria. Bergeyʼs Manual of Systematic Bacteriology 2C (2nd ed.). p. 1388.

Buchan, A., J.M. González and M.A. Moran. 2005. Overview of the marine Roseobacter lineage. Appl. Environ. Microbiol. 71:5665-5677.

Chernikova, T., J. Dallimore, H. Lünsdorf, H. Heipieper and P. Golyshin. 2017. Monaibacterium marinum, gen. nov, sp. nov, a new member of the Alphaproteobacteria isolated from seawater of Menai Straits, Wales, UK. Int. J. Syst. Evol. Microbiol. 67:3310-3317.

Chilton, M.D., M.H. Drummond, D.J. Merio, D. Sciaky, A.L. Montoya, M.P. Gordon and E.W. Nester. 1977. Stable incorporation of plasmid DNA into higher plant cells: the molecular basis of crown gall tumorigenesis. Cell 11(2):263-271.

Euzéby, J.P. 2011. “Alphaproteobacteria”. List of Prokaryotic names with Standing in Nomenclature (LPSN).

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

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

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.

Kimura, M. 1983. The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press, Cambridge, New York.

10.

Lane, D.J. 1991. 16S/23S rRNA sequencing. In: Stackebrandt, E. and M. Goodfellow (eds.), Nucleic Acid Techniques in Bacterial Systematics, Wiley, New York, USA.

11.

Matteo, P.F., J.T. Cameron, J.G. Stephen and M.P. Wayne. 2013. New rRNA gene-based phylogenies of the Alphaproteobacteria provide perspective on major Groups, mitochondrial ancestry and mhylogenetic Instability. PLoS One 8(12):e83383.

12.

Oren, A. and G.M. Garrity. 2014. Then and now: a systematic review of the systematics of prokaryotes in the last 80years. Antonie van Leeuwenhoek 106(1):43-56.

13.

Parte, A.C. 2014. LPSN-list of prokaryotic names with standing in nomenclature. Nucleic Acids Research 42(Database issue):D613-616.

14.

Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution 4(4):406-425.

15.

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.

16.

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 Res. 25:4876-4882.

17.

Wagner-Döbler, I. and H. Biebl. 2006. Environmental biology of the marine Roseobacter lineage. Annu. Rev. Microbiol. 60:255-280.

18.

Williams, K.P., B.W. Sobral and A.W. Dickerman. 2007. A robust species tree for the Alphaproteobacteria. Journal of Bacteriology 189(13):4578-4586.

19.

Yoon, S.H., S.M. Ha, S. Kwon, J. Lim, Y. Kim, H. Seo and J. Chun. 2017. Introducing EzBioCloud: A taxonomically united database of 16S rRNA and whole genome assemblies. Int. J. Syst. Evol. Microbiol. 67:1613-1617.

바로가기메뉴

논문 상세

Vol.8 No.4

Description of 42 unrecorded bacterial species in Korea, belonging to the class Alphaproteobacteria

Abstract

참고문헌

Journal of Species Research