Bacillus ginsengisoli sp. nov., isolated from soil of a ginseng field

International Journal of Systematic and Evolutionary Microbiology

Volumn 63, Issue PART3, 2013, Pages 855-860

  Nguyen, Ngoc Lan ^a   Kim, Yeon Ju ^a   Hoang, Van An ^a   Min, Jin Woo ^a   Liang, Zhi Qi ^a   Yang, Deok Chun ^a  

^a Kyung Hee University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; FATTY ACID; QUINONE DERIVATIVE; RNA 16S;

ARTICLE; BACILLUS; BACILLUS BATAVIENSIS; BACILLUS DRENTENSIS; BACILLUS FUMARIOLI; BACILLUS GINSENGISOLI; BACILLUS NIACINI; BACILLUS NOVALIS; BACILLUS POCHEONENSIS; BACILLUS SOLI; BACILLUS VIRETI; BACTERIAL CELL; BACTERIAL STRAIN; BACTERIUM ISOLATION; CHEMOTAXONOMY; DNA BASE COMPOSITION; ENDOSPORE-FORMING RODS AND COCCI; GENE SEQUENCE; GENOTYPE; GINSENG; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; SOIL;

BACILLUS; BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; DNA, BACTERIAL; FATTY ACIDS; MOLECULAR SEQUENCE DATA; PANAX; PHYLOGENY; QUINONES; REPUBLIC OF KOREA; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY;

EID: 84874920978     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.031740-0     Document Type: Article

References (34)

1. Albert, R. A., Archambault, J., Rosselló-Mora, R., Tindall, B. J. & Matheny, M. (2005). Bacillus acidicola sp. nov., a novel mesophilic, acidophilic species isolated from acidic Sphagnum peat bogs in Wisconsin. Int J Syst Evol Microbiol 55, 2125-2130.
2. Buck, J. D. (1982). Nonstaining (KOH) method for determination of Gram reactions of marine bacteria. Appl Environ Microbiol 44, 992-993.
3. Caccamo, D., Gugliandolo, C., Stackebrandt, E. & Maugeri, T. L. (2000). Bacillus vulcani sp. nov., a novel thermophilic species isolated from a shallow marine hydrothermal vent. Int J Syst Evol Microbiol 50, 2009-2012.
4. Chun, J., Lee, J.-H., Jung, Y., Kim, M., Kim, S. L., Kim, B. K. & Lim, Y. W. (2007). EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 57, 2259-2261.
5. Collins, M. D. & Jones, D. (1981). Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implication. Microbiol Rev 45, 316-354.
6. 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.
7. Felsenstein, J. (1985). Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
8. Fitch, W. M. (1971). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20, 406-416.
9. Gomori, G. (1955). Preparation of buffers for use in enzyme studies. In Methods in Enzymology. pp. 138-146. Edited by S. P. Colowick & N. O. Kaplan. New York: Academic Press.
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. Heyrman, J., Vanparys, B., Logan, N. A., Balcaen, A., Rodríguez-Díaz, M., Felske, A. & De Vos, P. (2004). Bacillus novalis sp. nov., Bacillus vireti sp. nov., Bacillus soli sp. nov., Bacillus bataviensis sp. nov. and Bacillus drentensis sp. nov., from the Drentse A grasslands. Int J Syst Evol Microbiol 54, 47-57.
12. Hiraishi, A., Ueda, Y., Ishihara, J. & Mori, T. (1996). Comparative lipoquinone analysis of influent sewage and activated sludge by highperformance liquid chromatography and photodiode array detection. J Gen Appl Microbiol 42, 457-469.
13. Kä mpfer, P. (1994). Limits and possibilities of total fatty acid analysis for classification and identification of Bacillus species. Syst Appl Microbiol 17, 86-98.
14. Kim, M. K., Im, W. T., Ohta, H., Lee, M. & Lee, S. T. (2005). 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.
15. Kimura, M. (1983). The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
16. Lee, J. C., Lim, J. M., Park, D. J., Jeon, C. O., Li, W. J. & Kim, C. J. (2006). Bacillus seohaeanensis sp. nov., a halotolerant bacterium that contains L-lysine in its cell wall. Int J Syst Evol Microbiol 56, 1893-1898.
17. Logan, N. A., Lebbe, L., Hoste, B., Goris, J., Forsyth, G., Heyndrickx, M., Murray, B. L., Syme, N., Wynn-Williams, D. D. & De Vos, P. (2000). Aerobic endospore-forming bacteria from geothermal environments in northern Victoria Land, Antarctica, and Candlemas Island, South Sandwich archipelago, with the proposal of Bacillus fumarioli sp. nov. Int J Syst Evol Microbiol 50, 1741-1753.
18. Mellmann, A., Cloud, J., Maier, Th., Keckevoet, U., Ramminger, I., Iwen, P., Dunn, J., Hall, G., Wilson, D. & other authors (2008). Evaluation of matrix-assisted laser desorption ionization-time-offlight mass spectrometry in comparison to 16S rRNA gene sequencing for species identification of nonfermenting bacteria. J Clin Microbiol 46, 1946-1954.
19. 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.
20. 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.
21. Nagel, M. & Andreesen, J. R. (1991). Bacillus niacini sp. nov., a nicotinate-metabolizing mesophile isolated from soil. Int J Syst Bacteriol 41, 134-139.
22. Nielsen, P., Fritze, D. & Priest, F. G. (1995). Phenetic diversity of alkaliphilic Bacillus strains: proposal for nine new species. Microbiology 141, 1745-1761.
23. Nogi, Y., Takami, H. & Horikoshi, K. (2005). Characterization of alkaliphilic Bacillus strains used in industry: proposal of five novel species. Int J Syst Evol Microbiol 55, 2309-2315.
24. Prescott, L. M. & Harley, J. P. (2001). Laboratory Exercises in Microbiology, 5th edn. 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. Shida, O., Takagi, H., Kadowaki, K., Nakamura, L. K. & Komagata, K. (1997). Transfer of Bacillus alginolyticus, Bacillus chondroitinus, Bacillus curdlanolyticus, Bacillus glucanolyticus, Bacillus kobensis, and Bacillus thiaminolyticus to the genus Paenibacillus and emended description of the genus Paenibacillus. Int J Syst Bacteriol 47, 289-298.
28. 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.
29. Ten, L. N., Baek, S. H., Im, W. T., Larina, L. L., Lee, J. S., Oh, H. M. & Lee, S. T. (2007). Bacillus pocheonensis sp. nov., a moderately halotolerant, aerobic bacterium isolated from soil of a ginseng field. Int J Syst Evol Microbiol 57, 2532-2537.
30. 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.
31. 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 systematics. Int J Syst Bacteriol 37, 463-464.
32. 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.
33. 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.
34. Wisotzkey, J. D., Jurtshuk, P., Jr, Fox, G. E., Deinhard, G. & Poralla, K. (1992). Comparative sequence analyses on the 16S rRNA (rDNA) of Bacillus acidocaldarius, Bacillus acidoterrestris, and Bacillus cycloheptanicus and proposal for creation of a new genus, Alicyclobacillus gen. nov. Int J Syst Bacteriol 42, 263-269.