Pedobacter ginsengiterrae sp. nov., isolated from soil of a ginseng field

International Journal of Systematic and Evolutionary Microbiology

Volumn 63, Issue PART4, 2013, Pages 1273-1279

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

^a Kyung Hee University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

FATTY ACID; GENOMIC DNA; LIPID; MENAQUINONE; PHOSPHATIDYLETHANOLAMINE; RNA 16S;

ARTICLE; BACTERIAL GENE; BACTERIUM ISOLATION; GENE SEQUENCE; GINSENG; NONHUMAN; NUCLEOTIDE SEQUENCE; PEDOBACTER; PEDOBACTER GINSENGITERRAE; PHENOTYPE; PRIORITY JOURNAL; SEQUENCE ANALYSIS; SOIL MICROFLORA;

EID: 84876094213     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.036376-0     Document Type: Article

References (33)

1. Bartholomew, J. W. & Finkelstein, H. (1958). Relationship of cell wall staining to gram differentiation. J Bacteriol 75, 77-84.
2. Bauer, A. W., Kirby, W. M. M., Sherris, J. C. & Turck, M. (1966). Antibiotic susceptibility testing by a standardized single disk method. Am J Clin Pathol 45, 493-496.
3. Bernardet, J.-F., Nakagawa, Y., Holmes, B. & Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes (2002). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 52, 1049-1070.
4. Christensen, W. B. (1946). Urea decomposition as a means of differentiating Proteus and paracolon cultures from each other and from Salmonella and Shigella types. J Bacteriol 52, 461-466.
5. Chun, J., Lee, J. H., Jung, Y., Kim, M., Kim, S., 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.
6. Collins, M. D. (1985). Isoprenoid quinone analysis in classification and identification. In Chemical Methods in Bacterial Systematics, pp. 267-287. Edited by M. Goodfellow & D. E. Minnikin. London: Academic Press.
7. Cowan, S. T. & Steel, K. J. (1974). Manual for the Identification of Medical Bacteria. Cambridge: Cambridge University Press.
8. 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.
9. Felsenstein, J. (1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
10. Gallego, V., García, M. T. & Ventosa, A. (2006). Pedobacter aquatilis sp. nov., isolated from drinking water, and emended description of the genus Pedobacter. Int J Syst Evol Microbiol 56, 1853-1858.
11. Gordon, N. S., Valenzuela, A., Adams, S. M., Ramsey, P. W., Pollock, J. L., Holben, W. E. & Gannon, J. E. (2009). Pedobacter nyackensis sp. nov., Pedobacter alluvionis sp. nov. and Pedobacter borealis sp. nov., isolated from Montana flood-plain sediment and forest soil. Int J Syst Evol Microbiol 59, 1720-1726.
12. 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.
13. Hwang, C. Y., Choi, D. H. & Cho, B. C. (2006). Pedobacter roseus sp. nov., isolated from a hypertrophic pond, and emended description of the genus Pedobacter. Int J Syst Evol Microbiol 56, 1831-1836.
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. Kumar, S., Tamura, K., Jakobsen, I. B. & Nei, M. (2001). MEGA2: molecular evolutionary genetics analysis software. Bioinformatics 17, 1244-1245.
17. Kwon, S.-W., Kim, B.-Y., Lee, K.-H., Jang, K.-Y., Seok, S.-J., Kwon, J.-S., Kim, W.-G. & Weon, H.-Y. (2007). Pedobacter suwonensis sp. nov., isolated from the rhizosphere of Chinese cabbage (Brassica campestris). Int J Syst Evol Microbiol 57, 480-484.
18. Lane, D. J. (1991). 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics, pp. 115-176. Edited by E. Stackebrandt & M. Goodfellow. Chichester: Wiley.
19. Lee, H. G., Kim, S. G., Im, W. T., Oh, H. M. & Lee, S. T. (2009). Pedobacter composti sp. nov., isolated from compost. Int J Syst Evol Microbiol 59, 345-349.
20. Margesin, R. & Shivaji, S. (2011). Genus II. Pedobacter Steyn et al. 1998. In Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 4, pp. 339-347. Edited by W. Whitman. Baltimore: The Williams & Wilkins Co.
21. Margesin, R., Spröer, C., Schumann, P. & Schinner, F. (2003). Pedobacter cryoconitis sp. nov., a facultative psychrophile from alpine glacier cryoconite. Int J Syst Evol Microbiol 53, 1291-1296.
22. 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.
23. Minnikin, D. E., Patel, P. V., Alshamaony, L. & Goodfellow, M. (1977). Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 27, 104-117.
24. Roh, S. W., Quan, Z.-X., Nam, Y.-D., Chang, H.-W., Kim, K.-H., Kim, M.-K., Im, W.-T., Jin, L., Kim, S.-H. & other authors (2008). Pedobacter agri sp. nov., from soil. Int J Syst Evol Microbiol 58, 1640-1643.
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. Skerman, V. B. D. (1967). A Guide to the Identification of the Genera of Bacteria, 2nd edn. Baltimore: Williams & Wilkins.
28. Steyn, P. L., Segers, P., Vancanneyt, M., Sandra, P., Kersters, K. & Joubert, J. J. (1998). Classification of heparinolytic bacteria into a new genus, Pedobacter, comprising four species: Pedobacter heparinus comb. nov., Pedobacter piscium comb. nov., Pedobacter africanus sp. nov. and Pedobacter saltans sp. nov. Proposal of the family Sphingobacteriaceae fam. nov. Int J Syst Bacteriol 48, 165-177.
29. 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.
30. Vanparys, B., Heylen, K., Lebbe, L. & De Vos, P. (2005). Pedobacter caeni sp. nov., a novel species isolated from a nitrifying inoculum. Int J Syst Evol Microbiol 55, 1315-1318.
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. Yoon, J.-H., Lee, M.-H., Kang, S.-J., Park, S.-Y. & Oh, T.-K. (2006). Pedobacter sandarakinus sp. nov., isolated from soil. Int J Syst Evol Microbiol 56, 1273-1277.
33. Yoon, J.-H., Kang, S.-J. & Oh, T.-K. (2007). Pedobacter terrae sp. nov., isolated from soil. Int J Syst Evol Microbiol 57, 2462-2466.