Swingsia samuiensis gen. nov., sp. nov., an osmotolerant acetic acid bacterium in the α-Proteobacteria

Journal of General and Applied Microbiology

Volumn 59, Issue 5, 2013, Pages 375-384

  Malimas, Taweesak ^a   Chaipitakchonlatarn, Winai ^a   Vu, Huong Thi Lan ^b   Yukphan, Pattaraporn ^a   Muramatsu, Yuki ^c   Tanasupawat, Somboon ^d   Potacharoen, Wanchern ^a   Nakagawa, Yasuyoshi ^c   Tanticharoen, Morakot ^a   Yamada, Yuzo ^a,e,f  

^a NATIONAL SCIENCE AND TECHNOLOGY DEVELOPMENT AGENCY   (Thailand)

^b UNIVERSITY OF NATURAL SCIENCES   (Viet Nam)

^c NATIONAL INSTITUTE OF TECHNOLOGY AND EVALUATION   (Japan)

^d CHULALONGKORN UNIVERSITY   (Thailand)

^e JAPAN INTERNATIONAL COOPERATION AGENCY   (Japan)

^f SHIZUOKA UNIVERSITY   (Japan)

Author keywords

Acetic acid bacteria; Gluconobacter; Neokomagataea; Saccharibacter; Sp. nov; Swingsia samuiensis gen. nov.

Indexed keywords

ACETIC ACID; BACTERIAL DNA; BACTERIAL RNA; CYTOSINE; GUANINE; RIBOSOME RNA;

ACETOBACTER; ACIDIPHILIUM CRYPTUM; ACIDOCELLA FACILIS; ACIDOMONAS; ACIDOSPHAERA RUBULIFACIENS; ALPHAPROTEOBACTERIA; AMEYAMAEA; ASAIA; BACTERIAL GENE; BACTERIAL STRAIN; BACTERIUM CULTURE; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATION; CULTURE MEDIUM; DNA DNA HYBRIDIZATION; DNA STRUCTURE; ENRICHMENT CULTURE; GENE AMPLIFICATION; GENE CLUSTER; GENETIC DISTANCE; GLUCONACETOBACTER; GLUCONOBACTER; GRANULIBACTER; KOMAGATAEIBACTER; KOZAKIA; LIPID COMPOSITION; NEIGHBOR JOINING METHOD; NEOASAIA; NEOKOMAGATAEA; NEOKOMAGATAEA TANENSIS; NEOKOMAGATAEA THAILANDICA; NGUYENIBACTER; NONHUMAN; NOTE; NUCLEOTIDE SEQUENCE; PARSIMONY ANALYSIS; PHYLOGENY; POLYMERASE CHAIN REACTION; RHODOPILA GLOBIFORMIS; RNA SEQUENCE; ROSEOCOCCUS THIOSULFATOPHILUS; SACCHARIBACTER; SACCHARIBACTER FLORICOLA; SEQUENCE ALIGNMENT; SPECIES DIFFERENCE; STRAIN DIFFERENCE; SWAMINATHANIA; SWINGSIA SAMUIENSIS; TANTICHAROENIA; TAXONOMIC IDENTIFICATION;

ACETOBACTERACEAE; BACTERIAL TYPING TECHNIQUES; CLUSTER ANALYSIS; DNA, BACTERIAL; DNA, RIBOSOMAL; FATTY ACIDS; FLOWERS; MOLECULAR SEQUENCE DATA; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; THAILAND;

EID: 84887293053     PISSN: 00221260     EISSN: 13498037     Source Type: Journal    
DOI: 10.2323/jgam.59.375     Document Type: Note

References (37)

1. Asai, T., Iizuka, H., and Komagata, K. (1964) The flagellation and taxonomy of genera Gluconobacter and Acetobacter with reference to the existence of intermediate strains. J. Gen. Appl. Microbiol., 10, 95-126.
2. Ezaki, T., Hashimoto, Y., and 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.
3. Felsenstein, J. (1981) Evolutionary trees from DNA sequences: A maximum likelihood approach. J. Mol. Evol., 17, 368-376.
4. Felsenstein, J. (1983) Parsimony in systematics: Biological and statistical issues. Annu. Rev. Ecol. Syst., 14, 313-333.
5. Felsenstein, J. (1985) Confidence limits on phylogenies: An approach using the bootstrap. Evolution, 39, 783-791.
6. Greenberg, D. E., Porcella, S. F., Stock, F., Wong, A., Conville, P. S., Murray, P. R., Holland, S. M., and Zelazny, A. M. (2006) Granulibacter bethesdensis gen. nov., sp. nov., a distinctive pathogenic acetic acid bacterium in the family Acetobacteraceae. Int. J. Syst. Evol. Microbiol., 56, 2609-2616.
7. Jojima, Y., Mihara, Y., Suzuki, S., Yokozeki, K., Yamanaka, S., and Fudou, R. (2004) Saccharibacter floricola gen. nov., sp. nov., a novel osmophilic acetic acid bacterium isolated from pollen. Int. J. Syst. Evol. Microbiol., 54, 2263-2267.
8. Katsura, K., Kawasaki, H., Potacharoen, W., Saono, S., Seki, T., Yamada, Y., Uchimura, T., and Komagata, K. (2001) Asaia siamensis sp. nov., an acetic acid bacterium in the α-Proteobacteria. Int. J. Syst. Evol. Microbiol., 51, 559-563.
9. Kersters, K., Lisdiyanti, P., Komagata, K., and Swings, J. (2006) The family Acetobacteraceae: The genera Acetobacter, Acidomonas, Asaia, Gluconacetobacter, Gluconobacter, and Kozakia. In The Prokaryotes, 3rd ed., Vol. 5, ed. by Dworkin, M., Falcow, S., Rosenberg, E., Schleifer, K.-H., and Stackebrandt, E., Springer, New York, pp. 163-200.
10. 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.
11. Lisdiyanti, P., Kawasaki, H., Widyastuti, Y., Saono, S., Seki, T., Yamada, Y., Uchimura, T., and Komagata K. (2002) Kozakia baliensis gen. nov., sp. nov., a novel acetic acid bacterium in the α-Proteobacteria. Int. J. Syst. Evol. Microbiol., 52, 813-818.
12. Loganathan, P. and Nair, S. (2004) Swaminathania salitolerans gen. nov., sp. nov., a salt-tolerant, nitrogen-fixing, and phosphate-solubilizing bacterium from wild rice (Porteresia coarctata Tateoka). Int. J. Syst. Evol. Microbiol., 54, 1185-1190.
13. Muramatsu, Y., Yukphan, P., Takahashi, M., Kaneyasu, M., Malimas, T., Potacharoen, W., Yamada, Y., Nakagawa, Y., Tanticharoen, M., and Suzuki, K. (2009) 16S rRNA gene sequences analysis of acetic acid bacteria isolated from Thailand. Microbiol. Cult. Coll., 25, 13-20.
14. Saitou, N. and Nei, M. (1987) The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol., 4, 406-425.
15. Skerman, V. B. D., McGowan, V., and Sneath, P. H. A. (1980) Approved Lists of Bacterial Names. Int. J. Syst. Bacteriol., 30, 225-420.
16. Swings, J., Gillis, M., and Kersters, K. (1992) Phenotypic identification of acetic acid bacteria. In Identification Methods in Applied and Environmental Microbiology (The Society for Applied Bacteriology, Technical Series no. 29), ed. By Board, R. G., Jones, D., and Skinner, F. A., Blackwell Scientific, Oxford, pp. 103-110.
17. Takahashi, M., Yukphan, P., Yamada, Y., Suzuki, K., Sakane, T., and Nakagawa, Y. (2006) Intrageneric structure of the genus Gluconobacter analyzed by the 16S rRNA gene and 16S-23S rRNA gene internal transcribed spacer sequences. J. Gen. Appl. Microbiol., 52, 187-193.
18. Tamaoka, J. and Komagata, K. (1984) Determination of DNA base composition by reversed-phase high performance liquid chromatography. FEMS Microbiol. Lett., 25, 125-128.
19. Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., and Kumar, S. (2011) MEGA 5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol., 28, 2731-2739.
20. Thompson, J. D., Gibson, T. J., Plewniak, F., Jeanmougin, F., and 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.
21. Urakami, T., Tamaoka, J., Suzuki, K., and Komagata, K. (1989) Acidomonas gen. nov., incorporating Acetobacter methanolicus as Acidomonas methanolica comb. nov. Int. J. Syst. Bacteriol., 39, 50-55.
22. Verlander, C. P. (1992) Detection of horseradish peroxidase by colorimetry. In Nonisotopic DNA Probe Techniques, ed. By Kricka. L. J., Academic Press, New York, pp. 185-201.
23. Vu, H. T. L., Yukphan, P., Chaipitakchonlatarn, W., Malimas, T., Muramatsu, Y., Bui, U. T. T., Tanasupawat, S., Duong, K. C., Nakagawa, Y., Pham, H. T., and Yamada, Y. (2013) Nguyenibacter vanlangensis gen. nov., sp. nov., an unusual acetic acid bacterium in the α-Proteobacteria. J. Gen. Appl. Microbiol., 59, 153-166.
24. Yamada, Y. and Yukphan, P. (2008) Genera and species in acetic acid bacteria. Int. J. Food Microbiol., 125, 15-24.
25. Yamada, Y., Aida, K., and Uemura, T. (1969) Enzymatic studies on the oxidation of sugar and sugar alcohol. V. Ubiquinone of acetic acid bacteria and its relation to classification of Gluconobacter and Acetobacter, especially of the so-called intermediate strains. J. Gen. Appl. Microbiol., 15, 181-196.
26. Yamada, Y., Hoshino, K., and Ishikawa, T. (1997) The phylogeny of acetic acid bacteria based on the partial sequences of 16S ribosomal RNA: The elevation of the subgenus Gluconoacetobacter to the generic level. Biosci. Biotechnol. Biochem., 61, 1244-1251.
27. Yamada, Y., Hosono, R., Lisdiyanti, P., Widyastuti, Y., Saono, S., Uchimura, T., and Komagata, K. (1999) Identification of acetic acid bacteria isolated from Indonesian sources, especially of isolates classified in the genus Gluconobacter. J. Gen. Appl. Microbiol., 45, 23-28.
28. Yamada, Y., Katsura, K., Kawasaki, H., Widyastuti, Y., Saono, S., Seki, T., Uchimura, T., and Komagata, K. (2000) Asaia bogorensis gen. nov., sp. nov., an unusual acetic acid bacterium in the α-Proteobacteria. Int. J. Syst. Evol. Microbiol., 50, 823-829.
29. Yamada, Y., Okada, Y., and Kondo, K. (1976) Isolation and characterization of "6C;polarly flagellated intermediate strains- in acetic acid bacteria. J. Gen. Appl. Microbiol., 22, 237-245.
30. Yamada, Y., Yukphan, P., Vu, H. T. L., Muramatsu, Y., Ochaikul, D., and Nakagawa, Y. (2012a) Subdivision of the genus Gluconaetobacter Yamada, Hoshino and Ishikawa 1998: The proposal of Komagatabacter gen. nov., for strains accommodated to the Gluconacetobacter xylinus group in the α-Proteobacteria. Ann. Microbiol., 62, 849-859.
31. Yamada, Y., Yukphan, P., Vu, H. T. L., Muramatsu, Y., Ochaikul, D., Tanasupawat, S., and Nakagawa, Y. (2012b) Description of Komagataeibacter gen. nov., with proposals of new combinations (Acetobacteraceae). J. Gen. Appl. Microbiol., 58, 397-404.
32. Yamashita, S., Uchimura, T., and Komagata, K. (2004) Emendation of the genus Acidomonas Urakami, Tamaoka, Suzuki and Komagata 1989. Int. J. Syst. Evol. Microbiol., 54, 865-870.
33. Yukphan, P., Malimas, T., Muramatsu, Y., Potacharoen, W., Tanasupawat, S., Nakagawa, Y., Tanticharoen, M., and Yamada, Y. (2011) Neokomagataea gen. nov., with descriptions of Neokomagataea thailandica sp. nov. and Neokomagataea tanensis sp. nov., osmotolerent acetic acid bacteria of the α-Proteobacteria. Biosci. Biotechnol. Biochem., 75, 419-426.
34. Yukphan, P., Malimas, T., Muramatsu, Y., Takahashi, M., Kaneyasu, M., Tanasupawat, S., Nakagawa, Y., Suzuki, K., Potacharoen, W., and Yamada, Y. (2008) Tanticharoenia sakaeratensis gen. nov., sp. nov., a new osmotolerant acetic acid bacterium in the α-Proteobacteria. Biosci. Biotechnol. Biochem., 72, 672-676.
35. Yukphan, P., Malimas, T., Muramatsu, Y., Takahashi, M., Kaneyasu, M., Potacharoen, W., Tanasupawat, S., Nakagawa, Y., Hamana, K., Tahara, Y., Suzuki, K., Tanticharoen, M., and Yamada, Y. (2009) Ameyamaea chiangmaiensis gen. nov., sp. nov., an acetic acid bacterium in the α-Proteobacteria. Biosci. Biotechnol. Biochem., 73, 2156-2162.
36. Yukphan, P., Malimas, T., Potacharoen, W., Tanasupawat, S., Tanticharoen, M., and Yamada, Y. (2005) Neoasaia chiangmaiensis gen. nov., sp. nov., a novel osmotolerant acetic acid bacterium in the α-Proteobacteria. J. Gen. Appl. Microbiol., 51, 301-311.
37. Yukphan, P., Potacharoen, W., Tanasupawat, S., Tanticharoen, M., and Yamada Y. (2004) Asaia krungthepensis sp. nov., an acetic acid bacterium in the α-Proteobacteria. Int. J. Syst. Evol. Microbiol., 54, 313-316.