1887

Abstract

Two indigo-reducing alkaliphilic strains, designated strain C40 and strain N214, were isolated from a fermented Polygonum Indigo ( Lour.) liquor sample aged for 10 months and obtained from Date City, Hokkaido, Japan. 16S rRNA gene sequence phylogeny suggested that strains C40 and N214 were members of the genus with the closest relative being JCM 7361 (97.5 % 16S rRNA gene sequence similarity with strain C40), which is the only strain having a 16S rRNA gene sequence similarity higher than 97 % with strain C40. Cells of strain C40 were Gram-stain-positive, facultatively anaerobic, straight rods that were motile by means of peritrichous flagella. The strains grew between 17 and 39 °C (optimum, 35 °C) and in the pH range of 9.0–12.0. No isoprenoid quinone was detected and the DNA G+C content was 37.5–37.7 mol%. The whole-cell fatty acid profile mainly consisted of iso-C and anteiso-C. DNA–DNA hybridization of strain C40 with JCM 7361 revealed a DNA–DNA relatedness value of 10±3 %. Owing to the differences in phenotypic characteristics and phylogenetic analyses based on 16S rRNA gene sequences, as well as DNA–DNA relatedness data from reported species of the genus , the isolates merit classification as a novel species in the genus , for which the name sp. nov. is proposed. The type strain is C40 ( = JCM 17250 = NCIMB 14686). An additional strain of the species is N214. An emended description of the genus is provided.

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2013-02-01
2021-10-18
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References

  1. Aino K., Narihiro T., Minamida K., Kamagata Y., Yoshimune K., Yumoto I. ( 2010 ). Bacterial community characterization and dynamics of indigo fermentation. . FEMS Microbiol Ecol 74, 174183. [View Article] [PubMed]
    [Google Scholar]
  2. An S.-Y., Ishikawa S., Kasai H., Goto K., Yokota A. ( 2007 ). Amphibacillus sediminis sp. nov., an endospore-forming bacterium isolated from lake sediment in Japan. . Int J Syst Evol Microbiol 57, 24892492. [View Article] [PubMed]
    [Google Scholar]
  3. Arai T., Yanahashi S., Sato J., Sato T., Ishikawa M., Koizumi Y., Kawasaki S., Niimura Y., Nakagawa J. ( 2009 ). Taxonomical and physiological comparisons of the three species of the genus Amphibacillus . . J Gen Appl Microbiol 55, 155162. [View Article] [PubMed]
    [Google Scholar]
  4. Barrow G. I., Feltham R. K. A. (editors) ( 1993 ). Cowan and Steel's Manual for the Identification of Medical Bacteria, , 3rd edn.. Cambridge:: Cambridge University Press;. [View Article]
    [Google Scholar]
  5. Ezaki T., Hashimoto Y., Yabuuchi E. ( 1989 ). Fluorometric deoxyribonucleic acid–deoxyribonucleic acid hybridization in micro-dilution 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, 224229. [View Article]
    [Google Scholar]
  6. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368376. [View Article] [PubMed]
    [Google Scholar]
  7. Fitch W. M. ( 1971 ). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20, 406416. [View Article]
    [Google Scholar]
  8. Guindon S., Gascuel O. ( 2003 ). A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. . Syst Biol 52, 696704. [View Article] [PubMed]
    [Google Scholar]
  9. Hirota K., Aino K., Nodasaka Y., Yumoto I. ( 2013 ). Oceanobacillus indicireducens sp. nov., a facultatively alkaliphile that reduces an indigo dye. . Int J Syst Evol Microbiol (in press). http://dx.doi.org/10.1099/ijs.0.034579-0
    [Google Scholar]
  10. Kimura M. ( 1980 ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16, 111120. [View Article] [PubMed]
    [Google Scholar]
  11. Marmur J. ( 1961 ). A procedure for the isolation of deoxyribonucleic acid from micro-organisms. . J Mol Biol 3, 208218. [View Article]
    [Google Scholar]
  12. Nakajima K., Hirota K., Nodasaka Y., Yumoto I. ( 2005 ). Alkalibacterium iburiense sp. nov., an obligate alkaliphile that reduces an indigo dye. . Int J Syst Evol Microbiol 55, 15251530. [View Article] [PubMed]
    [Google Scholar]
  13. Niimura Y., Koh E., Yanagida F., Suzuki K., Komagata K., Kozaki M. ( 1990 ). Amphibacillus xylanus gen. nov., sp. nov., a facultatively anaerobic sporeforming xylan-digesting bacterium which lacks cytochrome, quinone, and catalase. . Int J Syst Bacteriol 40, 297301. [View Article]
    [Google Scholar]
  14. Padden A. N., Dillon V. M., Edmonds J., Collins M. D., Alvarez N., John P. ( 1999 ). An indigo-reducing moderate thermophile from a woad vat, Clostridium isatidis sp. nov.. Int J Syst Bacteriol 49, 10251031. [View Article] [PubMed]
    [Google Scholar]
  15. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  16. Staneck J. L., Roberts G. D. ( 1974 ). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. . Appl Microbiol 28, 226231.[PubMed]
    [Google Scholar]
  17. Takahara Y., Tanabe O. ( 1960 ). Studies on the reduction of indigo in industrial fermentation vat (VII). . J Ferment Tcechnol 38, 329331.
    [Google Scholar]
  18. Tamaoka J., Komagata K. ( 1984 ). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. . FEMS Microbiol Lett 25, 125128. [View Article]
    [Google Scholar]
  19. 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, 27312739. [View Article] [PubMed]
    [Google Scholar]
  20. Teather R. M., Wood P. J. ( 1982 ). Use of Congo red-polysaccharide interactions in enumeration and characterization of cellulolytic bacteria from the bovine rumen. . Appl Environ Microbiol 43, 777780.[PubMed]
    [Google Scholar]
  21. Thompson J. D., Higgins D. G., Gibson T. J. ( 1994 ). clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. . Nucleic Acids Res 22, 46734680. [View Article] [PubMed]
    [Google Scholar]
  22. Wu X.-Y., Zheng G., Zhang W.-W., Xu X.-W., Wu M., Zhu X.-F. ( 2010 ). Amphibacillus jilinensis sp. nov., a facultatively anaerobic, alkaliphilic bacillus from a soda lake. . Int J Syst Evol Microbiol 60, 25402543. [View Article] [PubMed]
    [Google Scholar]
  23. Yumoto I., Yamazaki K., Sawabe T., Nakano K., Kawasaki K., Ezura Y., Shinano H. ( 1998 ). Bacillus horti sp. nov., a new Gram-negative alkaliphilic bacillus. . Int J Syst Bacteriol 48, 565571. [View Article] [PubMed]
    [Google Scholar]
  24. Yumoto I., Yamazaki K., Hishinuma M., Nodasaka Y., Suemori A., Nakajima K., Inoue N., Kawasaki K. ( 2001 ). Pseudomonas alcaliphila sp. nov., a novel facultatively psychrophilic alkaliphile isolated from seawater. . Int J Syst Evol Microbiol 51, 349355.[PubMed]
    [Google Scholar]
  25. Yumoto I., Nakamura A., Iwata H., Kojima K., Kusumoto K., Nodasaka Y., Matsuyama H. ( 2002 ). Dietzia psychralcaliphila sp. nov., a novel, facultatively psychrophilic alkaliphile that grows on hydrocarbons. . Int J Syst Evol Microbiol 52, 8590.[PubMed]
    [Google Scholar]
  26. Yumoto I., Hirota K., Nodasaka Y., Yokota Y., Hoshino T., Nakajima K. ( 2004 ). Alkalibacterium psychrotolerans sp. nov., a psychrotolerant obligate alkaliphile that reduces an indigo dye. . Int J Syst Evol Microbiol 54, 23792383. [View Article] [PubMed]
    [Google Scholar]
  27. Yumoto I., Hirota K., Nodasaka Y., Tokiwa Y., Nakajima K. ( 2008 ). Alkalibacterium indicireducens sp. nov., an obligate alkaliphile that reduces indigo dye. . Int J Syst Evol Microbiol 58, 901905. [View Article] [PubMed]
    [Google Scholar]
  28. Zhilina T. N., Garnova E. S., Tourova T. P., Kostrikina N. A., Zavarzin G. A. ( 2001 ). Amphibacillus fermentum sp. nov. and Amphibacillus tropicus sp. nov., new alkaliphilic, facultatively anaerobic, saccharolytic bacilli from Lake Magadi. . Microbiology (English translation of Microbiologiia) 70, 711722.
    [Google Scholar]
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