Reclassification of Paenibacillus ginsengisoli as a later heterotypic synonym of Paenibacillus anaericanus

International Journal of Systematic and Evolutionary Microbiology

Volumn 61, Issue 9, 2011, Pages 2101-2106

  Kim, Kwang Kyu ^a   Lee, Keun Chul ^a   Lee, Jung Sook ^a  

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

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; FATTY ACID; GENOMIC DNA; RNA 16S; RNA POLYMERASE BETA SUBUNIT;

ARTICLE; BACTERIAL PHENOMENA AND FUNCTIONS; BACTERIAL STRAIN; CHEMOTAXONOMY; CLASSIFICATION; DNA BASE COMPOSITION; ENZYME ACTIVITY; ENZYME SUBSTRATE COMPLEX; GENE SEQUENCE; GENOTYPE; LIPID COMPOSITION; NONHUMAN; NUCLEOTIDE SEQUENCE; PAENIBACILLUS; PAENIBACILLUS ANAERICANUS; PAENIBACILLUS GINSENGISOLI; PHENOTYPE; PRIORITY JOURNAL; RNA GENE; SEQUENCE HOMOLOGY; SPECIES; STRAIN DIFFERENCE;

BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; CLUSTER ANALYSIS; DNA, BACTERIAL; DNA, RIBOSOMAL; DNA-DIRECTED RNA POLYMERASES; FATTY ACIDS; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; PAENIBACILLUS; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA;

PAENIBACILLUS; PAENIBACILLUS ANAERICANUS;

EID: 80054771719     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.025650-0     Document Type: Article

References (35)

1. Adékambi, T., Shinnick, T. M., Raoult, D. & Drancourt, M. (2008). Complete rpoB gene sequencing as a suitable supplement to DNA- DNA hybridization for bacterial species and genus delineation. Int J Syst Evol Microbiol 58, 1807-1814.
2. Ash, C., Priest, F. G. & Collins, M. D. (1993). Molecular identification of rRNA group 3 bacilli (Ash, Farrow, Wallbanks and Collins) using a PCR probe test. Proposal for the creation of a new genus Paenibacillus. Antonie van Leeuwenhoek 64, 253-260.
3. Chimetto, L. A., Cleenwerck, I., Brocchi, M., Willems, A., De Vos, P. & Thompson, F. L. (2011). Marinomonas brasilensis sp. nov., isolated from the coral Mussismilia hispida, and reclassification of Marinomonas basaltis as a later heterotypic synonym of Marinomonas communis. Int J Syst Evol Microbiol 61, 1170-1175.
4. Daane, L. L., Harjono, I., Barns, S. M., Launen, L. A., Palleron, N. J. & Häggblom, M. M. (2002). PAH-degradation by Paenibacillus spp. and description of Paenibacillus naphthalenovorans sp. nov., a naphthalene- degrading bacterium from the rhizosphere of salt marsh plants. Int J Syst Evol Microbiol 52, 131-139.
5. De Vos, P., Ludwig, W., Schleifer, K.-H. & Whitman, W. B. (2009). Family IV. Paenibacillaceae fam. nov. In Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 3, p. 269. Edited by P. De Vos, G.M. Garrity, D. Jones, N. R. Krieg, W. Ludwig, F. A. Rainey, K. H. Schleifer & W. B. Whitman. New York: Springer.
6. De Vos, P., Ludwig, W., Schleifer, K.-H. & Whitman, W. B. (2010). Paenibacillaceae fam. nov. In List of New Names and New Combinations Previously Effectively, but not Validly, Published, Validation List no. 132. Int J Syst Evol Microbiol 60, 469-472.
7. Dobritsa, A. P., Reddy, M. C. S. & Samadpour, M. (2010). Reclassification of Herbaspirillum putei as a later heterotypic synonym of Herbaspirillum huttiense, with the description of H. huttiense subsp. huttiense subsp. nov. and H. huttiense subsp. putei subsp. nov., comb. nov., and description of Herbaspirillum aquaticum sp. nov. Int J Syst Evol Microbiol 60, 1418-1426.
8. Drancourt, M., Roux, V., Fournier, P. E. & Raoult, D. (2004). rpoB gene sequence-based identification of aerobic Gram-positive cocci of the genera Streptococcus, Enterococcus, Gemella, Abiotrophia, and Granulicatella. J Clin Microbiol 42, 497-504.
9. Durak, M. Z., Fromm, H. I., Huck, J. R., Zadoks, R. N. & Boor, K. J. (2006). Development of molecular typing methods for Bacillus spp. and Paenibacillus spp. isolated from fluid milk products. J Food Sci 71, 50-56.
10. Euzéby, J. P. (2010). List of Prokaryotic Names with Standing in Nomenclature. http://www.bacterio.cict.fr
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. Horn, M. A., Ihssen, J., Matthies, C., Schramm, A., Acker, G. & Drake, H. L. (2005). Dechloromonas denitrificans sp. nov., Flavobacterium denitrificans sp. nov., Paenibacillus anaericanus sp. nov. and Paenibacillus terrae strain MH72, N2O-producing bacteria isolated from the gut of the earthworm Aporrectodea caliginosa. Int J Syst Evol Microbiol 55, 1255-1265.
13. Hoshino, T., Nakabayashi, T., Hirota, K., Matsuno, T., Koiwa, R., Fujiu, S., Saito, I., Tkachenko, O. B., Matsuyama, H. & Yumoto, I. (2009). Paenibacillus macquariensis subsp. defensor subsp. nov., isolated from boreal soil. Int J Syst Evol Microbiol 59, 2074-2079.
14. Kämpfer, P. & Kroppenstedt, R. M. (1996). Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. Can J Microbiol 42, 989-1005.
15. Kim, K. K., Lee, K. C., Yu, H., Ryoo, S., Park, Y. & Lee, J.-S. (2010). Paenibacillus sputi sp. nov., isolated from the sputum of a patient with pulmonary disease. Int J Syst Evol Microbiol 60, 2371-2376.
16. Klatte, S., Rainey, F. A. & Kroppenstedt, R. M. (1994). Transfer of Rhodococcus aichiensis Tsukamura 1982 and Nocardia amarae Lechevalier and Lechevalier 1974 to the genus Gordona as Gordona aichiensis comb. nov. and Gordona amarae comb. nov. Int J Syst Bacteriol 44, 769-773.
17. Lane, D. J. (1991). 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics, pp. 115-175. Edited by E. Stackebrandt & M. Goodfellow. Chichester, UK: Wiley.
18. Lapage, S. P., Sneath, P. H. A., Lessel, E. F., Skerman, V. B. D., Seelinger, H. P. R. & Clark, W. A. (editors) (1992). International Code of Nomenclature of Bacteria (1990 Revision). Bacteriological Code. Washington, DC: American Society for Microbiology.
19. Lee, M., Ten, L. N., Baek, S.-H., Im, W.-T., Aslam, Z. & Lee, S.-T. (2007a). Paenibacillus ginsengisoli sp. nov., a novel bacterium isolated from soil of a ginseng field in Pocheon Province, South Korea. Antonie van Leeuwenhoek 91, 127-135.
20. Lee, M., Ten, L. N., Baek, S.-H., Im, W.-T., Aslam, Z. & Lee, S.-T. (2007b). Paenibacillus ginsengisoli sp. nov. In List of New Names and New Combinations Previously Effectively, but not Validly, Published, Validation List no. 116. Int J Syst Evol Microbiol 57, 1371-1373.
21. Logan, N. A., De Clerck, E., Lebbe, L., Verhelst, A., Goris, J., Forsyth, G., Rodríguez-Díaz, M., Heyndrickx, M. & De Vos, P. (2004). Paenibacillus cineris sp. nov. and Paenibacillus cookii sp. nov., from Antarctic volcanic soils and a gelatin-processing plant. Int J Syst Evol Microbiol 54, 1071-1076.
22. McClung, L. S. & Toabe, R. (1947). The egg yolk plate reaction for the resumptive diagnosis of Clostridium sporogenes and certain species of the gangrene and botulinum groups. J Bacteriol 53, 139-147.
23. Rosselló-Mora, R. & Amann, R. (2001). The species concept for prokaryotes. FEMS Microbiol Rev 25, 39-67.
24. Roux, V. & Raoult, D. (2004). Paenibacillus massiliensis sp. nov., Paenibacillus sanguinis sp. nov. and Paenibacillus timonensis sp. nov., isolated from blood cultures. Int J Syst Evol Microbiol 54, 1049-1054.
25. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101. Newark, DE: MIDI, Inc.
26. Shida, O., Takagi, H., Kadowaki, K., Nakamura, L. K. & Komagata, K. (1997). Transfer of Bacillus alginolyticus, Bacillus chondroitinus, Bacillus curdlanolyticus, Bacillus glucanolyticus, Bacillus kobensis, and Bacillus thiaminolyticus to the genus Paenibacillus and emended description of the genus Paenibacillus. Int J Syst Bacteriol 47, 289-298.
27. Sierra, G. (1957). A simple method for the detection of lipolytic activity of micro-organisms and some observations on the influence of the contact between cells and fatty substrates. Antonie van Leeuwenhoek 23, 15-22.
28. Smibert, R. M. & Krieg, N. R. (1994). General characterization. In Methods for General and Molecular Bacteriology, pp. 607-654. Edited by P. Gerhardt, R. G. E. Murray, W. A. Wood J & N. R. Krieg. Washington, DC: American Society for Microbiology.
29. Tamaoka, J. & Komagata, K. (1984). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25, 125-128.
30. Ten, L. N., Baek, S.-H., Im, W.-T., Lee, M., Oh, H. W. & Lee, S.-T. (2006). Paenibacillus panacisoli sp. nov., a xylanolytic bacterium isolated from soil in a ginseng field in South Korea. Int J Syst Evol Microbiol 56, 2677-2681.
31. 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.
32. Velázquez, E., de Miguel, T., Poza, M., Rivas, R., Rosselló-Mora, R. & Villa, T. G. (2004). Paenibacillus favisporus sp. nov., a xylanolytic bacterium isolated from cow faeces. Int J Syst Evol Microbiol 54, 59-64.
33. Wang, L. T., Lee, F. L., Tai, C. J. & Kuo, H. P. (2008). Bacillus velezensis is a later heterotypic synonym of Bacillus amyloliquefaciens. Int J Syst Evol Microbiol 58, 671-675.
34. 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.
35. Wu, X., Fang, H., Qian, C., Wen, Y., Shen, X., Li, O. & Gao, H. (2011). Paenibacillus tianmuensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 61, 1133-1137.