Spirosoma oryzae sp. nov., isolated from rice soil and emended description of the genus Spirosoma

International Journal of Systematic and Evolutionary Microbiology

Volumn 64, Issue , 2014, Pages 3230-3234

  Ahn, Jae Hyung ^a   Weon, Hang Yeon ^a   Kim, Soo Jin ^a   Hong, Seung Beom ^a   Seok, Soon Ja ^a   Kwon, Soon Wo ^a  

^a National Institute of Animal Science   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

AMINOPHOSPHOLIPID; BACTERIAL DNA; BACTERIAL RNA; GELATIN; GLUCONATE POTASSIUM; GLUCOSE; LIPID; MALTOSE; MANNITOL; MANNOSE; MENAQUINONE; N ACETYLGLUCOSAMINE; OXIDOREDUCTASE; PHOSPHATIDYLETHANOLAMINE; PHOSPHOLIPID; RNA 16S; SODIUM CHLORIDE; DRUG DERIVATIVE; FARNOQUINONE; FATTY ACID; VITAMIN MK 7;

AEROBIC BACTERIUM; ARTICLE; BACTERIAL CELL; BACTERIAL GENE; BACTERIAL GROWTH; BACTERIAL METABOLISM; BACTERIUM; BACTERIUM COLONY; BACTERIUM CULTURE; BACTERIUM ISOLATION; CELL SHAPE; CELL SIZE; CONCENTRATION (PARAMETERS); GENE SEQUENCE; GRAM NEGATIVE BACTERIUM; HYDROLYSIS; INCUBATION TEMPERATURE; NONHUMAN; NUCLEOTIDE SEQUENCE; PH; PHENOTYPE; PHYLOGENY; RICE; SEQUENCE HOMOLOGY; SOIL MICROFLORA; SOUTH KOREA; SPIROSOMA ORYZAE; SPIROSOMA PANACITERRAE; TYPE STRAIN; BACTERIUM IDENTIFICATION; CHEMISTRY; CLASSIFICATION; DNA BASE COMPOSITION; DNA SEQUENCE; FLEXIBACTERACEAE; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR GENETICS;

SPIROSOMA;

BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; CYTOPHAGACEAE; DNA, BACTERIAL; FATTY ACIDS; MOLECULAR SEQUENCE DATA; ORYZA SATIVA; PHOSPHOLIPIDS; PHYLOGENY; REPUBLIC OF KOREA; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; VITAMIN K 2;

EID: 84907057715     PISSN: 14665026     EISSN: 14665034     Source Type: Journal    
DOI: 10.1099/ijs.0.062901-0     Document Type: Article

References (20)

1. Ausubel, F. M., Brent, R., Kingston, R. E., Moore, D. D., Seidman, J. G., Smith, J. A. & Struhl, K. (editors) (1987). Current Protocols in Molecular Biology. New York: Greene/Wiley Interscience.
2. Baik, K. S., Kim, M. S., Park, S. C., Lee, D. W., Lee, S. D., Ka, J.-O., Choi, S. K. & Seong, C. N. (2007). Spirosoma rigui sp. nov., isolated from fresh water. Int J Syst Evol Microbiol 57, 2870-2873.
3. Breznak, J. A. & Costilow, R. N. (1994). Physicochemical factors in growth. In Methods for General and Molecular Bacteriology. pp. 137-154. Edited by P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, DC: American Society for Microbiology.
4. Collins, M. D., Goodfellow, M. & Minnikin, D. E. (1980). Fatty acid, isoprenoid quinone and polar lipid composition in the classification of Curtobacterium and related taxa. J Gen Microbiol 118, 29-37.
5. Felsenstein, J. (1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368-376.
6. Felsenstein, J. (1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
7. Finster, K. W., Herbert, R. A. & Lomstein, B. A. (2009). Spirosoma spitsbergense sp. nov. and Spirosoma luteum sp. nov., isolated from a high Arctic permafrost soil, and emended description of the genus Spirosoma. Int J Syst Evol Microbiol 59, 839-844.
8. Fitch, W. M. (1971). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20, 406-416.
9. Fries, J., Pfeiffer, S., Kuffner, M. & Sessitsch, A. (2013). Spirosoma endophyticum sp. nov., isolated from Zn-and Cd-accumulating Salix caprea. Int J Syst Evol Microbiol 63, 4586-4590.
10. Gonzalez, J. M. & Saiz-Jimenez, C. (2002). A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. Environ Microbiol 4, 770-773.
11. 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.
12. Kimura, M. (1980). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16, 111-120.
13. Larkin, J. M. & Borrall, R. (1984). Family 1. Spirosomaceae Larkin and Borrall 1978 595AL. In Bergey’s Manual of Systematic Bacteriology, vol. 1, pp. 125-132. Edited by N. R. Krieg & J. G. Holt. Baltimore, MD: Williams & Wilkins.
14. 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.
15. Pruesse, E., Peplies, J. & Glöckner, F. O. (2012). SINA: accurate highthroughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics 28, 1823-1829.
16. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
17. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101. Newark, DE: Microbial ID.
18. Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M. & Kumar, S. (2011). MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28, 2731-2739.
19. Ten, L. N., Xu, J.-L., Jin, F.-X., Im, W.-T., Oh, H.-M. & Lee, S.-T. (2009). Spirosoma panaciterrae sp. nov., isolated from soil. Int J Syst Evol Microbiol 59, 331-335.
20. 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.