Chryseobacterium ginsengisoli sp. nov., isolated from the rhizosphere of ginseng and emended description of Chryseobacterium gleum

International Journal of Systematic and Evolutionary Microbiology

Volumn 63, Issue PART8, 2013, Pages 2975-2980

  Nguyen, Ngoc Lan ^a   Kim, Yeon Ju ^a   Hoang, Van An ^a   Yang, Deok Chun ^a  

^a Kyung Hee University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

GENOMIC DNA; ISOPRENOID; PHOSPHATIDYLETHANOLAMINE; QUINONE DERIVATIVE; RNA 16S;

ARTICLE; BACTERIAL STRAIN; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATION; CHRYSEOBACTERIUM; CHRYSEOBACTERIUM GINSENGISOLI; CHRYSEOBACTERIUM GINSENOSIDIMUTANS; CHRYSEOBACTERIUM SCOPHTHALMUM; GENE SEQUENCE; GINSENG; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; RHIZOSPHERE; RNA SEQUENCE;

BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; CHRYSEOBACTERIUM; DNA, BACTERIAL; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; PANAX; PHYLOGENY; REPUBLIC OF KOREA; RHIZOSPHERE; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; VITAMIN K 2;

EID: 84880970910     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.045427-0     Document Type: Article

References (33)

1. Bernardet, J.-F., Nakagawa, Y., Holmes, B. & Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes (2002). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 52, 1049-1070.
2. Bernardet, J.-F., Hugo, C. & Bruun, B. (2011). Genus VII. Chryseobacterium Vandamme et al. 1994. In Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 4, pp. 180-196. Edited by W. Whitman. Baltimore: Williams & Wilkins.
3. Buck, J. D. (1982). Nonstaining (KOH) method for determination of gram reactions of marine bacteria. Appl Environ Microbiol 44, 992-993.
4. Busse, H.-J., Bunka, S., Hensel, A. & Lubitz, W. (1997). Discrimination of members of the family Pasteurellaceae based on polyamine patterns. Int J Syst Bacteriol 47, 698-708.
5. Ezaki, T., Hashimoto, Y. & Yabuuchi, E. (1989). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39, 224-229.
6. Felsenstein, J. (1985). Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
7. Fitch, W. M. (1971). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20, 406-416.
8. Gerhardt, P., Murray, R. G. E., Wood, W. A. & Krieg, N. R. (1994). Phenotypic characterization. In Method for General and Molecular Bacteriology, pp. 607-654. Edited by P. Gerhardt. Washington, DC: American Society for Microbiology.
9. Gomori, G. (1955). Preparation of buffers for use in enzyme studies. Methods Enzymol 1, 138-146.
10. 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.
11. Hiraishi, A., Ueda, Y., Ishihara, J. & Mori, T. (1996). Comparative lipoquinone analysis of influent sewage and activated sludge by high performance liquid chromatography and photodiode array detection. J Gen Appl Microbiol 42, 457-469.
12. Holmes, B., Owen, R. J., Steigerwalt, A. G. & Brenner, D. J. (1984). Flavobacterium gleum, a new species found in human clinical specimens. Int J Syst Bacteriol 34, 21-25.
13. Im, W. T., Yang, J. E., Kim, S. Y. & Yi, T. H. (2011). Chryseobacterium ginsenosidimutans sp. nov., a bacterium with ginsenoside-converting activity isolated from soil of a Rhus vernicifera-cultivated field. Int J Syst Evol Microbiol 61, 1430-1435.
14. Kämpfer, P., Lodders, N., Vaneechoutte, M. & Wauters, G. (2009a). Transfer of Sejongia antarctica, Sejongia jeonii and Sejongia marina to the genus Chryseobacterium as Chryseobacterium antarcticum comb. nov., Chryseobacterium jeonii comb. nov. and Chryseobacterium marinum comb. nov. Int J Syst Evol Microbiol 59, 2238-2240.
15. Kämpfer, P., Vaneechoutte, M., Lodders, N., De Baere, T., Avesani, V., Janssens, M., Busse, H. J. & Wauters, G. (2009b). Description of Chryseobacterium anthropi sp. nov. to accommodate clinical isolates biochemically similar to Kaistella koreensis and Chryseobacterium haifense, proposal to reclassify Kaistella koreensis as Chryseobacterium koreense comb. nov. and emended description of the genus Chryseobacterium. Int J Syst Evol Microbiol 59, 2421-2428.
16. Kim, K. K., Kim, M. K., Lim, J. H., Park, H. Y. & Lee, S. T. (2005a). Transfer of Chryseobacterium meningosepticum and Chryseobacterium miricola to Elizabethkingia gen. nov. as Elizabethkingia meningoseptica comb. nov. and Elizabethkingia miricola comb. nov. Int J Syst Evol Microbiol 55, 1287-1293.
17. Kim, M. K., Im, W. T., Ohta, H., Lee, M. & Lee, S. T. (2005b). Sphingopyxis granuli sp. nov., a b-glucosidase-producing bacterium in the family Sphingomonadaceae in a-4 subclass of the Proteobacteria. J Microbiol 43, 152-157.
18. Kim, O. S., Cho, Y. J., Lee, K., Yoon, S. H., Kim, M., Na, H., Park, S. C., Jeon, Y. S., Lee, J. H. & other authors (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.
19. Kimura, M. (1983). The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
20. Lányi{dotless}́, B. (1988). Classical and rapid identification methods for medically important bacteria. Methods Microbiol 19, 1-67.
21. Mesbah, M., Premachandran, U. & Whitman, W. B. (1989). Precise measurement of the G+C content of deoxyribonucleic acid by highperformance liquid chromatography. Int J Syst Bacteriol 39, 159-167.
22. Minnikin, D. E., O'Donnell, A. G., Goodfellow, M., Alderson, G., Athalye, M., Schaal, A. & Parlett, J. H. (1984). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2, 233-241.
23. Pot, B., Vandamme, P. & Kersters, K. (1994). Analysis of electrophoretic whole-organism protein fingerprints. In Chemical Methods in Prokaryotic Systematics, pp. 493-521. Edited by M. Goodfellow & A. G. O'Donnell. Chichester: Wiley.
24. Prescott, L. M. & Harley, J. P. (2001). The effects of chemical agents on bacteria II: antimicrobial agents (Kirby-Bauer Method). In Laboratory Excercises in Microbiology, 5th edn, pp. 257-262. Edited by L. M. Prescott & J. P. Harley. New York: McGraw-Hill.
25. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
26. Sasser, M. (1990). Identification of Bacteria by Gas Chromatography of Cellular Fatty acids, MIDI Technical Note 101. Newark, De: MIDI Inc.
27. Tamura, K., Dudley, J., Nei, M. & Kumar, S. (2007). MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24, 1596-1599.
28. Thompson, J. D., Gibson, T. J., Plewniak, F., Jeanmougin, F. & Higgins, D. G. (1997). The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25, 4876-4882.
29. Vandamme, P., Bernardet, J. F., Segers, P., Kersters, K. & Holmes, B. (1994). New perspectives in the classification of the flavobacteria: description of Chryseobacterium gen. nov., Bergeyella gen. nov., and Empedobacter nom. rev. Int J Syst Bacteriol 44, 827-831.
30. Wayne, L. G., Brenner, D. J., Colwell, R. R., Grimont, P. A. D., Kandler, O., Krichevsky, M. I., Moore, L. H., Moore, W. E. C., Murray, R. G. E. & other authors (1987). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematic. Int J Syst Bacteriol 37, 463-464.
31. Weisburg, W. G., Barns, S. M., Pelletier, D. A. & Lane, D. J. (1991). 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173, 697-703.
32. Weon, H. Y., Kim, B. Y., Joa, J. H., Son, J. A., Song, M. H., Kwon, S. W., Go, S. J. & Yoon, S. H. (2008). Methylobacterium iners sp. nov. and Methylobacterium aerolatum sp. nov., isolated from air samples in Korea. Int J Syst Evol Microbiol 58, 93-96.
33. Wu, Y. F., Wu, Q. L. & Liu, S. J. (2013). Chryseobacterium taihuense sp. nov., isolated from a eutrophic lake, and emended descriptions of the genus Chryseobacterium, Chryseobacterium taiwanense, Chryseobacterium jejuense and Chryseobacterium indoltheticum. Int J Syst Evol Microbiol 63, 913-919.