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Taxonomic Note: A Place for DNA-DNA Reassociation and 16S rRNA Sequence Analysis in the Present Species Definition in Bacteriology

¹DSM-Deutsche Sammlung von Mikrooiganismen und Zellkulturen GmbH, 38124 Braunschweig, Germany
²Department for Microbiology, The University of Queensland, Brisbane 4072, Queensland, Australia

^* Corresponding author. Mailing address: DSM-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH, Mascheroder Weg 1b, 38124 Braunschweig, Germany. Phone: 49 531 2616 352. Fax: 49 531 2616 418. Electronic mail address: Stackebrandt{at}venus.gbf-braunschweig.d400.de.

ABSTRACT

Because a natural entity "species" cannot be recognized as a group of strains that is genetically well separated from its phylogenetic neighbors, a pragmatic approach was taken to define a species by a polyphasic approach (L. G. Wayne, 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, Int. J. Syst. Bacteriol. 37:463-464, 1987), in which a DNA reassociation value of about 70% plays a dominant role. With the establishment of rapid sequence analysis of 16S rRNA and the recognition of its potential to determine the phylogenetic position of any prokaryotic organism, the role of 16S rRNA similarities in the present species definition in bacteriology needs to be clarified. Comparative studies clearly reveal the limitations of the sequence analysis of this conserved gene and gene product in the determination of relationships at the strain level for which DNA-DNA reassociation experiments still constitute the superior method. Since today the primary structure of 16S rRNA is easier to determine than hybridization between DNA strands, the strength of the sequence analysis is to recognize the level at which DNA pairing studies need to be performed, which certainly applies to similarities of 97% and higher.

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				M. A. Ehrmann, S. Freiding, and R. F. Vogel Leuconostoc palmae sp. nov., a novel lactic acid bacterium isolated from palm wine Int J Syst Evol Microbiol, May 1, 2009; 59(5): 943 - 947. [Abstract] [Full Text] [PDF]

				S.-Y. Yang, H. Liu, R. Liu, K.-Y. Zhang, and R. Lai Saccharibacillus kuerlensis sp. nov., isolated from a desert soil Int J Syst Evol Microbiol, May 1, 2009; 59(5): 953 - 957. [Abstract] [Full Text] [PDF]

				L. N. Ten, H.-M. Jung, W.-T. Im, S.-A. Yoo, H.-M. Oh, and S.-T. Lee Lysobacter panaciterrae sp. nov., isolated from soil of a ginseng field Int J Syst Evol Microbiol, May 1, 2009; 59(5): 958 - 963. [Abstract] [Full Text] [PDF]

				T. Nishiyama, A. Ueki, N. Kaku, and K. Ueki Clostridium sufflavum sp. nov., isolated from a methanogenic reactor treating cattle waste Int J Syst Evol Microbiol, May 1, 2009; 59(5): 981 - 986. [Abstract] [Full Text] [PDF]

				A. B. Arun, W.-M. Chen, W.-A. Lai, J.-H. Chou, P. D. Rekha, F.-T. Shen, S. Singh, and C.-C. Young Parvularcula lutaonensis sp. nov., a moderately thermotolerant marine bacterium isolated from a coastal hot spring Int J Syst Evol Microbiol, May 1, 2009; 59(5): 998 - 1001. [Abstract] [Full Text] [PDF]

				B.-C. Kim, W.-J. Jeong, D. Y. Kim, H.-W. Oh, H. Kim, D.-S. Park, H.-M. Park, and K. S. Bae Paenibacillus pueri sp. nov., isolated from Pu'er tea Int J Syst Evol Microbiol, May 1, 2009; 59(5): 1002 - 1006. [Abstract] [Full Text] [PDF]

				D. Clermont, S. Diard, C. Bouchier, C. Vivier, F. Bimet, L. Motreff, M. Welker, W. Kallow, and C. Bizet Microbacterium binotii sp. nov., isolated from human blood Int J Syst Evol Microbiol, May 1, 2009; 59(5): 1016 - 1022. [Abstract] [Full Text] [PDF]

				S. Qin, H.-H. Chen, H.-P. Klenk, G.-Z. Zhao, J. Li, L.-H. Xu, and W.-J. Li Glycomyces scopariae sp. nov. and Glycomyces mayteni sp. nov., isolated from medicinal plants in China Int J Syst Evol Microbiol, May 1, 2009; 59(5): 1023 - 1027. [Abstract] [Full Text] [PDF]

				M. Liu, F. Peng, Y. Wang, K. Zhang, G. Chen, and C. Fang Kineococcus xinjiangensis sp. nov., isolated from desert sand Int J Syst Evol Microbiol, May 1, 2009; 59(5): 1090 - 1093. [Abstract] [Full Text] [PDF]

				D.-S. An, C.-R. Yin, S.-T. Lee, and C.-H. Cho Mucilaginibacter daejeonensis sp. nov., isolated from dried rice straw Int J Syst Evol Microbiol, May 1, 2009; 59(5): 1122 - 1125. [Abstract] [Full Text] [PDF]

				L. Debruyne, S. L. W. On, E. De Brandt, and P. Vandamme Novel Campylobacter lari-like bacteria from humans and molluscs: description of Campylobacter peloridis sp. nov., Campylobacter lari subsp. concheus subsp. nov. and Campylobacter lari subsp. lari subsp. nov. Int J Syst Evol Microbiol, May 1, 2009; 59(5): 1126 - 1132. [Abstract] [Full Text] [PDF]

				T. Tan, B. Wang, and Z. Shao Donghicola xiamenensis sp. nov., a marine bacterium isolated from seawater of the Taiwan Strait in China Int J Syst Evol Microbiol, May 1, 2009; 59(5): 1143 - 1147. [Abstract] [Full Text] [PDF]

				A. F. Yassin Saccharopolyspora rosea sp. nov., isolated from a patient with bronchial carcinoma Int J Syst Evol Microbiol, May 1, 2009; 59(5): 1148 - 1152. [Abstract] [Full Text] [PDF]

				J. Yuan, Q. Lai, B. Wang, F. Sun, X. Liu, Y. Du, G. Li, L. Gu, T. Zheng, and Z. Shao Oceanicola pacificus sp. nov., isolated from a deep-sea pyrene-degrading consortium Int J Syst Evol Microbiol, May 1, 2009; 59(5): 1158 - 1161. [Abstract] [Full Text] [PDF]

				L. A. Romanenko, N. Tanaka, G. M. Frolova, and V. V. Mikhailov Sphingomonas japonica sp. nov., isolated from the marine crustacean Paralithodes camtschatica Int J Syst Evol Microbiol, May 1, 2009; 59(5): 1179 - 1182. [Abstract] [Full Text] [PDF]

				M. K. Kim, S. Sathiyaraj, R. K. Pulla, and D.-C. Yang Brevibacillus panacihumi sp. nov., a {beta}-glucosidase-producing bacterium Int J Syst Evol Microbiol, May 1, 2009; 59(5): 1227 - 1231. [Abstract] [Full Text] [PDF]

				S. Kaiser, K. Biehler, and D. Jonas A Stenotrophomonas maltophilia Multilocus Sequence Typing Scheme for Inferring Population Structure J. Bacteriol., May 1, 2009; 191(9): 2934 - 2943. [Abstract] [Full Text] [PDF]

				C. A. Kellogg, J. T. Lisle, and J. P. Galkiewicz Culture-Independent Characterization of Bacterial Communities Associated with the Cold-Water Coral Lophelia pertusa in the Northeastern Gulf of Mexico Appl. Envir. Microbiol., April 15, 2009; 75(8): 2294 - 2303. [Abstract] [Full Text] [PDF]

				M. Halpern, T. Shaked, R. Pukall, and P. Schumann Leucobacter chironomi sp. nov., a chromate-resistant bacterium isolated from a chironomid egg mass Int J Syst Evol Microbiol, April 1, 2009; 59(4): 665 - 670. [Abstract] [Full Text] [PDF]

				Z. Aslam, M. Yasir, C. O. Jeon, and Y. R. Chung Lysobacter oryzae sp. nov., isolated from the rhizosphere of rice (Oryza sativa L.) Int J Syst Evol Microbiol, April 1, 2009; 59(4): 675 - 680. [Abstract] [Full Text] [PDF]

				M.-C. Lin, S.-R. Jiang, J.-H. Chou, A. B. Arun, C.-C. Young, and W.-M. Chen Aquabacterium fontiphilum sp. nov., isolated from spring water Int J Syst Evol Microbiol, April 1, 2009; 59(4): 681 - 685. [Abstract] [Full Text] [PDF]

				S. Hosoya, K. Adachi, and H. Kasai Thalassomonas actiniarum sp. nov. and Thalassomonas haliotis sp. nov., isolated from marine animals Int J Syst Evol Microbiol, April 1, 2009; 59(4): 686 - 690. [Abstract] [Full Text] [PDF]

				D.-S. An, H.-G. Lee, S.-T. Lee, and W.-T. Im Rhodanobacter ginsenosidimutans sp. nov., isolated from soil of a ginseng field in South Korea Int J Syst Evol Microbiol, April 1, 2009; 59(4): 691 - 694. [Abstract] [Full Text] [PDF]

				H.-D. Huang, W. Wang, T. Ma, G.-Q. Li, F.-L. Liang, and R.-L. Liu Sphingomonas sanxanigenens sp. nov., isolated from soil Int J Syst Evol Microbiol, April 1, 2009; 59(4): 719 - 723. [Abstract] [Full Text] [PDF]

				S. C. Park, K. S. Baik, M. S. Kim, S. S. Kim, S. R. Kim, M.-J. Oh, D. Kim, B.-H. Bang, and C. N. Seong Aequorivita capsosiphonis sp. nov., isolated from the green alga Capsosiphon fulvescens, and emended description of the genus Aequorivita Int J Syst Evol Microbiol, April 1, 2009; 59(4): 724 - 728. [Abstract] [Full Text] [PDF]

				K. Watanabe, J. Fujimoto, Y. Tomii, M. Sasamoto, H. Makino, Y. Kudo, and S. Okada Lactobacillus kisonensis sp. nov., Lactobacillus otakiensis sp. nov., Lactobacillus rapi sp. nov. and Lactobacillus sunkii sp. nov., heterofermentative species isolated from sunki, a traditional Japanese pickle Int J Syst Evol Microbiol, April 1, 2009; 59(4): 754 - 760. [Abstract] [Full Text] [PDF]

				S.-Y. Lin, C. C. Young, H. Hupfer, C. Siering, A. B. Arun, W.-M. Chen, W.-A. Lai, F.-T. Shen, P. D. Rekha, and A. F. Yassin Azospirillum picis sp. nov., isolated from discarded tar Int J Syst Evol Microbiol, April 1, 2009; 59(4): 761 - 765. [Abstract] [Full Text] [PDF]

				Y. Wang, J. Dai, L. Zhang, X. Luo, Y. Li, G. Chen, Y. Tang, Y. Meng, and C. Fang Lysobacter ximonensis sp. nov., isolated from soil Int J Syst Evol Microbiol, April 1, 2009; 59(4): 786 - 789. [Abstract] [Full Text] [PDF]

				M. Verma, M. Kumar, M. Dadhwal, J. Kaur, and R. Lal Devosia albogilva sp. nov. and Devosia crocina sp. nov., isolated from a hexachlorocyclohexane dump site Int J Syst Evol Microbiol, April 1, 2009; 59(4): 795 - 799. [Abstract] [Full Text] [PDF]