Stenotrophomonas panacihumi sp. nov., isolated from soil of a ginseng field

Journal of Microbiology

Volumn 48, Issue 1, 2010, Pages 30-35

  Yi, Hoonbok ^a   Srinivasan, Sathiyaraj ^a   Kim, Myung Kyum ^a  

^a Seoul Women University   (South Korea)

Author keywords

16S rRNA gene; S. panacihumi; Taxonomy; Xanthomonadaceae

Indexed keywords

CAROTENOID; FATTY ACID; RNA 16S;

ARTICLE; BACTERIAL GENE; CHEMISTRY; CLASSIFICATION; GENETICS; GINSENG; ISOLATION AND PURIFICATION; MICROBIOLOGY; PHYLOGENY; SOUTH KOREA; STENOTROPHOMONAS;

CAROTENOIDS; FATTY ACIDS; GENES, BACTERIAL; PANAX; PHYLOGENY; REPUBLIC OF KOREA; RNA, RIBOSOMAL, 16S; SOIL MICROBIOLOGY; STENOTROPHOMONAS;

BACTERIA (MICROORGANISMS); NEGIBACTERIA; PANAX GINSENG; STENOTROPHOMONAS; STENOTROPHOMONAS MALTOPHILIA; STENOTROPHOMONAS RHIZOPHILA; XANTHOMONADACEAE; XANTHOMONAS CAMPESTRIS;

EID: 77949301121     PISSN: 12258873     EISSN: 12258873     Source Type: Journal    
DOI: 10.1007/s12275-010-0006-0     Document Type: Article

References (34)

1. Assih, E. A., A. S. Ouattara, S. Thierry, J. L. Cayol, M. Labat, and H. Macarie. 2002. Stenotrophomonas acidaminiphila sp. nov., a strictly aerobic bacterium isolated from an upflow anaerobic sludge blanket (UASB) reactor. Int. J. Syst. Evol. Microbiol. 52, 559-568.
2. Brinkman, F. S., I. Wan, R. E. Hancock, A. M. Rose, and S. J. Jones. 2001. PhyloBLAST: facilitating phylogenetic analysis of BLAST results. Bioinformatics 17, 385-387.
3. Buck, J. D. 1982. Nonstaining (KOH) method for determination of Gram reactions of marine bacteria. Appl. Environ. Microbiol. 44, 992-993.
4. Choi, J. H., H. Y. Jung, H. S. Kim, and H. G. Cho. 2000. PhyloDraw: a phylogenetic tree drawing system. Bioinformatics 16, 1056-1058.
5. Collins, M. D. and D. Jones. 1981. Distribution of isoprenoid quinine structural types in bacteria and their taxonomic implications. Microbiol. Rev. 45, 316-354.
6. Ezaki, T., Y. Hashimoto, and E. Yabuuchi. 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. 2O-producing Xanthomonas-like isolates from biofilters as Stenotrophomonas nitritireducens sp. nov., Luteimonas mephitis gen. nov., sp. nov. and Pseudoxanthomonas broegbernensis gen. nov., sp. nov. Int. J. Syst. Evol. Microbiol. 50, 273-282.
9. Goel, A. K., L. Rajagopal, and R. V. Sonti. 2001. Pigment and virulence deficiencies associated with mutations in the aroE gene of Xanthomonas oryzae pv. oryzae. Appl. Environ. Microbiol. 67, 245-250.
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. Hauben, L., L. Vauterin, E. R. B. Moore, M. Hoste, and J. Swings. 1999. Genomic diversity of the genus Stenotrophomonas. Int. J. Syst. Bacteriol. 49, 1749-1760.
12. Heylen, K., B. Vanparys, F. Peirsegaele, L. Lebbe, and P. De Vos. 2007. Stenotrophomonas terrae sp. nov. and Stenotrophomonas humi sp. nov., two nitrate-reducing bacteria isolated from soil. Int. J. Syst. Evol. Microbiol. 57, 2056-2061.
13. Hugh, R. 1981. Pseudomonas maltophilia sp. nov., nom. rev. Int. J. Syst. Bacteriol. 31, 195.
14. Kim, M. K., W. T. Im, H. Ohta, M. Lee, and S. T. Lee. 2005. Sphingopyxis granuli sp. nov., a β-glucosidase-producing bacterium in the family Sphingomonadaceae in α-4 subclass of the Proteobacteria. J. Microbiol. 43, 152-157.
15. Kim, H. B., S. Srinivasan, G. Sathiyaraj, L. H. Quan, S. H. Kim, T. P. Bui, Z. Q. Liang, Y. J. Kim, and D. C. Yang. 2009. Stenotrophomonas ginsengisoli sp. nov., a bacterium isolated from a ginseng field. Int. J. Syst. Evol. Microbiol. doi: 10. 1099/ijs. 0. 014662-0.
16. Kimura, M. 1983. The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press, Cambridge, UK.
17. Kumar, S., K. Tamura, I. B. Jakobsen, and M. Nei. 2001. MEGA2: Molecular Evolutionary Genetics analysis software. Bioinformatics 17, 1244-1245.
18. Lee, Y. H., S. Lee, D. H. Lee, S. M. Yu, J. Lee, S. Heu, J. W. Hyun, D. S. Ra, and E. W. Park. 2008. Difference of physiochemical characterristics between citrus bacterial canker pathotypes and identification of Korean isolates with repetitive sequence PCRs. Plant Pathol. J. 24, 423-432.
19. Mesbah, M., U. Premachandran, and W. B. Whitman. 1989. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int. J. Syst. Bacteriol. 39, 159-167.
20. Moore, E., A. Krüger, L. Hauben, S. Seal, R. De Baere, K. De Wachter, K. Timmis, and J. Swings. 1997. 16S rRNA gene sequence analyses and inter- and intrageneric relationship of Xanthomonas species and Stenotrophomonas maltophilia. FEMS Microbiol. Lett. 151, 145-153.
21. Palleroni, N. J. and J. F. Bradbury. 1993. Stenotrophomonas, a new bacterial genus for Xanthomonas maltophilia (Hugh 1980) Swings et al. 1983. Int. J. Syst. Bacteriol. 43, 606-609.
22. Ridé, M. and S. Ridé. 1992. Xanthomonas populi (ex Ridé 1958) sp. nov., nom. rev. Int. J. Syst. Bacteriol. 42, 652-653.
23. Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Bio. Evol. 4, 406-425.
24. Sasser, M. 1990. Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101. MIDI Inc., Newark, DE, USA.
25. T. J. Microbiol. Biotechnol. 6, 68-69.
26. Stackebrandt, E. and B. M. Goebel. 1994. Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int. J. Syst. Bacteriol. 44, 846-849.
27. Tamaoka, J. and K. Komagata. 1984. Determination of DNA base composition by reversed phase high-performance liquid chromategraphy. FEMS. Microbiol. Lett. 25, 125-128.
28. Thompson, J. D., T. J. Gibson, F. Plewniak, F. Jeanmougin, and D. G. Higgins. 1997. The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 24, 4876-4882.
29. Trébaol, G., L. Gardan, C. Manceau, J. L. Tanguy, Y. Tirilly, and S. Boury. 2000. Genomic and phenotypic characterization of Xanthomonas cynarae sp. nov., a new species that causes bacterial bract spot of artichoke (Cynara scolymus L.). Int. J. Syst. Evol. Microbiol. 50, 1471-1478.
30. Wayne, L. G., D. J. Brenner, R. R. Colwell, P. A. D. Grimont, O. Kandler, M. I. Krichevsky, L. H. Moore, W. E. C. Moore, R. G. E. Murray, E. Stackebrandt, M. P. Starr, and H. G. Trüper. 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.
31. Weisburg, W. G., S. M. Barns, D. A. Pelletier, and D. J. Lane. 1991. 16S ribosomal DNA amplification for phylogenetic study. J. Bacteriol. 173, 697-703.
32. Wolf, A., A. Fritze, M. Hagemann, and G. Berg. 2002. Stenotrophomonas rhizophila sp. nov., a novel plant-associated bacterium with antifungal properties. Int. J. Syst. Evol. Microbiol. 52, 1937-1944.
33. Yang, H. C., W. T. Im, M. S. Kang, D. Y. Shin, and S. T. Lee. 2006. Stenotrophomonas koreensis sp. nov., isolated from compost in South Korea. Int. J. Syst. Evol. Microbiol. 56, 81-84.
34. Yoon, J. H., S. J. Kang, H. W. Oh, and T. K. Oh. 2006. Stenotrophomonas dokdonensis sp. nov., isolated from soil. Int. J. Syst. Evol. Microbiol. 56, 1363-1367.