Sphingomonas rosea sp. nov. and Sphingomonas swuensis sp. nov., rosy colored β-glucosidase-producing bacteria isolated from soil

Journal of Microbiology

Volumn 49, Issue 4, 2011, Pages 610-616

  Srinivasan, Sathiyaraj ^a   Lee, Jae Jin ^a   Kim, Myung Kyum ^a  

^a Seoul Women University   (South Korea)

Author keywords

16S rRNA gene; Sphingomonas rosea; Sphingomonas swuensis; taxonomy

Indexed keywords

BACTERIAL DNA; BETA GLUCOSIDASE; FATTY ACID; RNA 16S;

ARTICLE; BACTERIUM IDENTIFICATION; BIOSYNTHESIS; CLASSIFICATION; DNA BASE COMPOSITION; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; PHYLOGENY; SPHINGOMONAS; ULTRASTRUCTURE;

BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; BETA-GLUCOSIDASE; DNA, BACTERIAL; FATTY ACIDS; PHYLOGENY; RNA, RIBOSOMAL, 16S; SOIL MICROBIOLOGY; SPHINGOMONAS;

NEGIBACTERIA; SPHINGOMONAS;

EID: 80052292155     PISSN: 12258873     EISSN: 19763794     Source Type: Journal    
DOI: 10.1007/s12275-011-1017-1     Document Type: Article

References (37)

1. An, H., M. Xu, J. Dai, Y. Wang, F. Cai, H. Qi, F. Peng, and C. Fang. Sphingomonas xinjiangensis sp. nov., isolated from the desert of Xinjiang, China. Int. J. Syst. Evol. Microbiol. Article in press.
2. Asker, D., T. Beppu, and K. Ueda. 2007. Sphingomonas astaxanthinifaciens sp. nov., a novel astaxanthin-producing bacterium of the family Sphingomonadaceae isolated from Misasa, Tottori, Japan. FEMS Microbiol. Lett. 273, 140-148.
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., E. B. M. Denner, S. Buczolits, M. Salkinoja-Salonen, A. Bennasar, and P. Kämpfer. 2003. Sphingomonas aurantiaca sp. nov., Sphingomonas aerolata sp. nov. and Sphingomonas faeni sp. nov., air- and dust borne and Antarctic, orange-pigmented, psychrotolerant bacteria, and emended description of the genus Sphingomonas. Int. J. Syst. Evol. Microbiol. 53, 1253-1260.
5. Busse, H. J., P. Kämpfer, and E. B. Denner. 1999. Chemotaxonomic characterisation of Sphingomonas. J. Ind. Microbiol. Biotechnol. 23, 242-251.
6. Choi, T. E., Q. M. Liu, J. E. Yang, S. Sun, S. Y. Kim, T. H. Yi, and W. T. Im. 2010. Sphingomonas ginsenosidimutans sp. nov., with ginsenoside converting activity. J. Microbiol. 48, 760-766.
7. Collins, M. D. and D. Jones. 1981. Distribution of isoprenoid quinine structural types in bacteria and their taxonomic implications. Microbiol. Rev. 45, 316-354.
8. Duan, S., Z. Liu, X. Feng, K. Zheng, and L. Cheng. 2009. Sphingobacterium bambusae sp. nov., isolated from soil of bamboo plantation. J. Microbiol. 47, 693-698.
9. 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.
10. Felsenstein, J. 1985. Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
11. 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.
12. Huo, Y. Y., X. W. Xu, S. P. Liu, H. L. Cui, X. Li, and M. Wu. 2011. Sphingomonas rubra sp. nov., isolated from wastewater in a bioreactor. Int. J. Syst. Evol. Microbiol. 61, 1028-1032.
13. 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.
14. Kim, B. C., K. H. Lee, M. N. Kim, E. M. Kim, S. R. Min, H. S. Kim, and K. S. Shin. 2009. Paenibacillus pini sp. nov., a cellulolytic bacterium isolated from the rhizosphere of pine tree. J. Microbiol. 47, 699-704.
15. Kim, M. K., K. Schubert, W. T. Im, K. H. Kim, S. T. Lee, and J. Overmann. 2007. Sphingomonas kaistensis sp. nov., a novel alphaproteobacterium containing pufLM genes. Int. J. Syst. Evol. Microbiol. 57, 1527-1534.
16. Kimura, M. 1983. The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
17. Komagata, K. and K. Suzuki. 1987. Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol. 19, 161-207.
18. Kumar, S., K. Tamura, and M. Nei. 2004. MEGA3: Integrated Software for Molecular Evolutionary Genetics analysis and Sequence Alignment. Brief. Bioinform. 5, 150-163.
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. Minnikin, D. E., A. G. O'Donnell, M. Goodfellow, G. Alderson, M. Athalye, A. Schaal, and J. H. Parlett. 1984. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J. Microbiol. Methods 2, 233-241.
21. Moon, J. H., H. A. Shin, Y. A. Rha, and A. S. Om. 2009. The intrinsic antimicrobial activity of bamboo salt against Salmonella enteritidis. Mol. Cell. Toxicol. 5, 323-327.
22. Nigam, A., S. Jit, and R. Lal. 2010. Sphingomonas histidinilytica sp. nov., isolated from a hexachlorocyclohexane dumpsite. Int. J. Syst. Evol. Microbiol. 60, 1038-1043.
23. Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. 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. Shin, Y. K., J. S. Lee, C. O. Chun, H. J. Kim, and Y. H. Park. 1996. Isoprenoid quinone profiles of the Leclercia adecarboxylata KCTC 1036T. 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. Takeuchi, M., K. Hamana, and A. Hiraishi. 2001. Proposal of the genus Sphingomonas sensu stricto and three new genera, Sphingobium, Novosphingobium and Sphingopyxis, on the basis of phylogenetic and chemotaxonomic analyses. Int. J. Syst. Evol. Microbiol. 51, 1405-1417.
28. Takeuchi, M., F. Kawai, Y. Shimada, and A. Yokota. 1993. Taxonomic study of polyethylene glycerol-utilizing bacteria: emended description of the genus Sphingomonas and new descriptions of Sphingomonas macrogoltabidus sp. nov., Sphingomonas sanguis sp. nov. and Sphingomonas terrae sp. nov. Syst. Appl. Microbiol. 16, 227-238.
29. Tamaoka, J. and K. Komagata. 1984. Determination of DNA base composition by reversed phase high-performance liquid chromatography. FEMS Microbiol. Lett. 25, 125-128.
30. 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.
31. 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.
32. 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.
33. Yabuuchi, E., Y. Kosako, N. Fujiwara, T. Naka, I. Matsunaga, H. Ogura, and K. Kobayashi. 2002. Emendation of the genus Sphingomonas Yabuuchi et al., 1990 and junior objective synonymy of the species of three genera, Sphingobium, Novosphingobium and Sphingopyxis, in conjunction with Blastomonas ursincola. Int. J. Syst. Evol. Microbiol. 52, 1485-1496.
34. Yabuuchi, E., I. Yano, H. Oyaizu, Y. Hashimoto, T. Ezaki, and H. Yamamoto. 1990. Proposals of Sphingomonas paucimobilis gen. nov. and comb. nov., Sphingomonas parapaucimobilis sp. nov., Sphingomonas yanoikuyae sp. nov., Sphingomonas adhaesiva sp. nov., Sphingomonas capsulata comb. nov., and two genospecies of the genus Sphingomonas. Microbiol. Immunol. 34, 99-119.
35. Yi, T. H., C. K. Han, S. Srinivasan, K. J. Lee, and M. K. Kim. 2010. Sphingomonas humi sp. nov., isolated from soil. J. Microbiol. 48, 165-169.
36. Zhang, D. C., H. J. Busse, H. C. Liu, Y. G. Zhou, F. Schinner, and R. Margesin. 2011. Sphingomonas glacialis sp. nov., a psychrophilic bacterium isolated from alpine glacier cryoconite. Int. J. Syst. Evol. Microbiol. 61, 587-591.
37. Zhang, J. Y., X. Y. Liu, and S. J. Liu. 2010. Sphingomonas changbaiensis sp. nov., isolated from forest soil. Int. J. Syst. Evol. Microbiol. 60, 790-795.