Starkeya koreensis sp. nov., isolated from rice straw

International Journal of Systematic and Evolutionary Microbiology

Volumn 56, Issue 10, 2006, Pages 2409-2414

  Im, Wan Taek ^a   Aslam, Zubair ^a   Lee, Myungjin ^b   Ten, Leonid N ^a,c   Yang, Deok Chun ^d   Lee, Sung Taik ^a  

^a Korea Advanced Institute of Science and Technology (KAIST)   (South Korea)

^b Korea Research Institute of Bioscience and Biotechnology (KRIBB)   (South Korea)

^c NATIONAL UNIVERSITY OF UZBEKISTAN   (Uzbekistan)

^d Kyung Hee University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

AMPICILLIN; FATTY ACID; GUANINE NUCLEOTIDE; KANAMYCIN; PYRIMIDINE NUCLEOTIDE; RNA 16S; STREPTOMYCIN; TETRACYCLINE; UBIDECARENONE; UBIQUINONE;

ANCYLOBACTER AQUATICUS; ANGULOMICROBIUM AMANITIFORME; ANGULOMICROBIUM TETRAEDALE; ARTICLE; BACTERIAL STRAIN; BACTERIUM COLONY; BACTERIUM ISOLATION; CHEMOTAXONOMY; CONTROLLED STUDY; CULTURE MEDIUM; DNA CONTENT; DNA DNA HYBRIDIZATION; FAMILIA; GENUS; GRAM NEGATIVE AEROBIC RODS AND COCCI; HYPOMICROBIACEAE; INCUBATION TIME; METHYLORHABDUS MULTIVORANS; MICROBIAL MORPHOLOGY; NEW SPECIES; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEOBACTERIA; RICE; RNA SEQUENCE; SEQUENCE HOMOLOGY; SOUTH KOREA; STARKEYA; STARKEYA KOREENSIS; STARKEYA NOVELLA; STRAW; TYPE STRAIN;

ALPHAPROTEOBACTERIA; BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; DNA, BACTERIAL; DNA, RIBOSOMAL; GENES, RRNA; KOREA; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; ORYZA SATIVA; PHYLOGENY; RNA, RIBOSOMAL, 16S;

ANCYLOBACTER AQUATICUS; ANGULOMICROBIUM AMANITIFORME; ANGULOMICROBIUM TETRAEDALE; BACTERIA (MICROORGANISMS); HYPHOMICROBIACEAE; METHYLORHABDUS MULTIVORANS; NEGIBACTERIA; PROTEOBACTERIA; STARKEYA; STARKEYA NOVELLA;

EID: 33750028269     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.64093-0     Document Type: Article

References (38)

1. An, D.-S., Im, W.-T., Yang, H.-C. & Lee, S.-T. (2006). Shinella granuli gen. nov., sp. nov., and proposal of the reclassification of Zoogloea ramigera ATCC 19623 as Shinella zoogloeoides sp. nov. Int J Syst Evol Microbiol 56, 443-448.
2. Aslam, Z., Im, W. T., Kim, M. K. & Lee, S. T. (2005a). Flavobacterium granuli sp. nov., isolated from granules used in a wastewater treatment plant. Int J Syst Evol Microbiol 55, 747-751.
3. Aslam, Z., Im, W.-T., Ten, L. N. & Lee, S.-T. (2005b). Phenylobacterium koreense sp. nov., isolated from South Korea. Int J Syst Evol Microbiol 55, 2001-2005.
4. Atlas, R. M. (1993). Handbook of Microbiological Media. Edited by L. C. Parks. Boca Raton, FL: CRC Press.
5. Bae, H.-S., Im, W.-T. & Lee, S.-T. (2005). Lysobacter concretionis sp. nov., isolated from anaerobic granules in an upflow anaerobic sludge blanket reactor. Int J Syst Evol Microbiol 55, 1155-1161.
6. Beijerinck, M. W. (1904). Phénomènes de réduction produits par les microbes. Arch Neerland Sci Ex Nat 9, 131-157.
7. Buck, J. D. (1982). Nonstaining (KOH) method for determination of Gram reactions of marine bacteria. Appl Environ Microbiol 44, 992-993.
8. Collins, M. D. & Jones, D. (1981). Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implication. Microbiol Rev 45, 316-354.
9. Doronina, N. V., Braus-Strohmeyer, S. A., Leisinger, T. & Trotsenko, Y. A. (1995). Isolation and characterization of a new facultatively methylotrophic bacterium: description of Methylorhabdus multivorans gen. nov., sp. nov. Syst Appl Microbiol 18, 92-98.
10. Dreyfus, B., Garcia, J. L. & Gillis, M. (1988). Characterization of Azorhizobium caulinodans gen. nov., sp. nov., a stem-nodulating nitrogen-fixing bacterium isolated from Sesbania rostrata. Int J Syst Bacteriol 38, 89-98.
11. 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.
12. Felsenstein, J. (1985). Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
13. Fitch, W. M. (1971). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20, 406-416.
14. 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.
15. Im, W.-T., Kang, M.-S., Park, H.-Y., Kim, M.-K. & Lee, S.-T. (2003). Culturable bacterial strain's diversity of environmental samples. In Proceedings of the International Meeting of the Federation of Korean Microbiological Societies, abstract B4023, p. 165. Seoul: Federation of Korean Microbiological Societies.
16. Kelly, D. P. & Wood, A. P. (2000). Reclassification of some species of Thiobacillus to the newly designated genera Acidithiobacillus gen. nov., Halothiobacillus gen. nov. and Thermithiobacillus gen. nov. Int J Syst Evol Microbiol 50, 511-516.
17. Kelly, D. P., McDonald, I. R. & Wood, A. P. (2000). Proposal for the reclassification of Thiobacillus novellus as Starkeya novella gen. nov., comb. nov., in the α-subclass of the Proteobacteria. Int J Syst Evol Microbiol 50, 1797-1802.
18. Kim, M. K., Im, W.-T., Ohta, H., Lee, M. & Lee, S.-T. (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.
19. Kimura, M. (1983). The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
20. Kumar, S., Tamura, K. & Nei, M. (2004). MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150-163.
21. La, H.-J., Im, W.-T., Ten, L. N., Kang, M.-S., Shin, D.-Y. & Lee, S.-T. (2005). Paracoccus koreensis sp. nov., isolated from anaerobic granules in an upflow anaerobic sludge blanket (UASB) reactor. Int J Syst Evol Microbiol 55, 1657-1660.
22. Lewin, R. A. & Lounsbery, D. M. (1969). Isolation, cultivation and characterization of flexibacteria. J Gen Microbiol 58, 145-170.
23. Lingens, F., Blecher, R., Blecher, H., Blobel, F., Eberspächer, J., Fröhner, C., Görisch, H., Görisch, H. & Layh, G. (1985). Phenylobacterium immobile gen. nov., sp. nov., a Gram-negative bacterium that degrades the herbicide chloridazon. Int J Syst Bacteriol 35, 26-39.
24. Mesbah, M., Premachandran, U. & Whitman, W. B. (1989). Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39, 159-167.
25. Quan, Z.-X., Im, W.-T. & Lee, S.-T. (2006). Azonexus caeni sp. nov., a denitrifying bacterium isolated from sludge of a wastewater treatment plant. Int J Syst Evol Microbiol 56, 1043-1046.
26. Raj, H. D. (1983). Proposal for Ancylobacter gen. nov. as a substitute for the bacterial genus Microcyclus Ørskov 1928. Int J Syst Bacteriol 33, 397-398.
27. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
28. Sasser, M. (1990). Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids. MIDI Technical Note 101. Newark, DE: MIDI.
29. T. J Microbiol Biotechnol 6, 68-69.
30. Stackebrandt, E. & Goebel, B. M. (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.
31. Ten, L. N., Im, W.-T., Kim, M.-K., Kang, M.-S. & Lee, S.-T. (2004). Development of a plate technique for screening of polysaccharide-degrading microorganisms by using a mixture of insoluble chromogenic substrates. J Microbiol Methods 56, 375-382.
32. 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.
33. Vasil'eva, L. V., Lafitskaya, T. N. & Namsaraev, B. B. (1979). New genus of budding bacteria Angulomicrobium tetraedrale having radially symmetrical cells. Mikrobiologiia 48, 1033-1039 (in Russian; English translation pp. 843-849).
34. Wayne, L. G., Brenner, D. J., Colwell, R. R. & 9 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.
35. Xin, Y. H., Zhou, Y. G., Zhou, H. L. & Chen, W. X. (2004). Ancylobacter rudongensis sp. nov.,, isolated from roots of Spartina anglica. Int J Syst Evol Microbiol 54, 385-388.
36. Yang, D.-C., Im, W.-T., Kim, M. K. & Lee, S.-T. (2005). Pseudoxanthomonas koreensis sp. nov. and Pseudoxanthomonas daejeonensis sp. nov. Int J Syst Evol Microbiol 55, 787-791.
37. Yang, D.-C., Im, W.-T., Kim, M. K., Ohta, H. & Lee, S.-T. (2006a). Sphingomonas soli sp. nov., a β-glucosidase-producing bacterium in the family Sphingomonadaceae in the α-4 subgroup of the Proteobacteria. Int J Syst Evol Microbiol 56, 703-707.
38. Yang, H.-C., Im, W.-T., Kang, M. S., Shin, D.-Y. & Lee, S.-T. (2006b). Stenotrophomonas koreensis sp. nov., isolated from compost in South Korea. Int J Syst Evol Microbiol 56, 81-84.