1887

Abstract

Three strains, MAFF 210191, G24103 and G24116, assumed to be members of two novel species, were isolated from several rhizosphere habitats in different parts of Japan. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the isolates formed a distinct monophyletic group together with the two known species of the genus , suggesting that the isolates have a close affiliation with this genus. In this study, a polyphasic approach was used to characterize and compare the three isolates with the two species of the genus , and . All three isolates were aerobic, Gram-negative, motile and non-sporulating and they ranged in shape from spherical to short rods. The cells multiplied by budding and utilized a wide variety of monosaccharides, disaccharides and sugar alcohols as sole carbon and energy sources, but they did not utilize C compounds, salicin or -melezitose. The strains were inhibited by --alanine and glycine (both at 10 mM). The major cellular fatty acids were C cyclo 8, C, C and C 7. The three isolates shared <12 % and <11 % DNA–DNA relatedness with DSM 5896 and DSM 16812, respectively. The G+C content of the isolates (61–62 mol%) was also significantly lower than those of the two previously characterized species. In spite of many morphological, physiological and chemotaxonomic similarities among the three isolates, strain MAFF 210191 could be differentiated from strains G24103 and G24116 on the basis of 16S rRNA gene sequence divergence, DNA–DNA relatedness (<46 %) and gelatin hydrolysis. Two novel species are therefore proposed, namely sp. nov., with the type strain MAFF 210191 (=DSM 18385), and sp. nov., with the type strain G24103 (=NBRC 101365=NCIMB 14143) and also including strain G24116 (=NBRC 101366=NCIMB 14144). Emended descriptions of the genus and are also presented.

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2007-03-01
2024-03-29
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References

  1. Ausubel F. M., Brent R., Kingston R. E., Moore D. D., Seidman J. G., Smith J. A., Struhl K. (editors) 1995 Current Protocols in Molecular Biology New York: Wiley;
    [Google Scholar]
  2. El-Beltagy A., Hattori T. 1994; Comparative study of bacterial populations in a grassland soil in 1987 and 1992. Bull Jpn Soc Microb Ecol 9:67–73 [CrossRef]
    [Google Scholar]
  3. 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 [CrossRef]
    [Google Scholar]
  4. Fritz I., Strömpl C., Abraham W. R. 2004; Phylogenetic relationships of the genera Stella , Labrys and Angulomicrobium within the ‘ Alphaproteobacteria ’ and description of Angulomicrobium amanitiforme sp. nov. Int J Syst Evol Microbiol 54:651–657 [CrossRef]
    [Google Scholar]
  5. Hamamoto M., Nakase T. 1995; Ballistosporous yeasts found on the surface of plant materials collected in New Zealand. 1. Six new species in the genus Sporobolomyces . Antonie van Leeuwenhoek 67:151–171 [CrossRef]
    [Google Scholar]
  6. Harder W., Attwood M., Quayele J. R. 1973; Methanol assimilation by Hyphomicrobium spp. J Gen Microbiol 78:155–163 [CrossRef]
    [Google Scholar]
  7. Hashidoko Y., Tada M., Osaki M., Tahara S. 2002; Soft gel medium solidified with gellan gum for preliminary screening for root-associating, free-living nitrogen-fixing bacteria inhabiting the rhizoplane of plants. Biosci Biotechnol Biochem 66:2259–2263 [CrossRef]
    [Google Scholar]
  8. Janssen P. H., Yates P. S., Grinton B. E., Taylor P. M., Sait M. 2002; Improved culturability of soil bacteria and isolation in pure culture of novel members of the divisions Acidobacteria , Actinobacteria , Proteobacteria , and Verrucomicrobia . Appl Environ Microbiol 68:2391–2396 [CrossRef]
    [Google Scholar]
  9. Jeanmougin F., Thompson J. D., Gouy M., Higgins D. G., Gibson T. J. 1998; Multiple sequence alignment with clustal x. Trends Biochem Sci 23:403–405 [CrossRef]
    [Google Scholar]
  10. Kawasaki H., Hoshino Y., Hirata A., Yamasato K. 1993; Is intracytoplasmic membrane structure a generic criterion? It does not coincide with phylogenetic interrelationships among phototrophic purple nonsulfur bacteria. Arch Microbiol 160:358–362
    [Google Scholar]
  11. Lynch J. M. 1990; Introduction: some consequences of microbial rhizosphere competence for plant and soil. In The Rhizosphere pp  1–10 Edited by Lynch J. M. Chichester: Wiley;
    [Google Scholar]
  12. Miller J. A., Kalyuzhnaya M. G., Noyes E., Lara J. C., Lidstrom M. E., Chistoserdova L. 2005; Labrys methylaminiphilus sp. nov., a novel facultatively methylotrophic bacterium from a freshwater lake sediment. Int J Syst Evol Microbiol 55:1247–1253 [CrossRef]
    [Google Scholar]
  13. Normand P., Orso S., Cournoyer B., Jeannin P., Chapelon C., Dawson J., Evtushenko L., Misra A. K. 1996; Molecular phylogeny of the genus Frankia and related genera and emendation of the family Frankiaceae . Int J Syst Bacteriol 46:1–9 [CrossRef]
    [Google Scholar]
  14. Sambrook J., Fritsch E. F., Maniatis T. 1989 Molecular Cloning: a Laboratory Manual , 2nd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory;
    [Google Scholar]
  15. Sasser M. 1990; Identification of bacteria by gas chromatography of cellular fatty acids . Technical Note 101: Newark, DE: MIDI;
    [Google Scholar]
  16. Smibert R. M., Krieg N. R. 1994; Phenotypic characterization. In Methods for General and Molecular Bacteriology pp  607–654 Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. Washington, DC: American Society for Microbiology;
    [Google Scholar]
  17. Tamaoka J., Komagata K. 1984; Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128 [CrossRef]
    [Google Scholar]
  18. Tchan Y.-T., New P. B. 1984; Genus 1. Azotobacter Beijerinck 1907, 567AL . In Bergey's Manual of Systematic Bacteriology vol 1 pp  220–229 Edited by Krieg N. R., Holt J. G. Baltimore: Williams & Wilkins;
    [Google Scholar]
  19. 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 [CrossRef]
    [Google Scholar]
  20. Tighe S. W., de Lajudie P., Dipietro K., Lindström K., Nick G., Jarvis B. D. W. 2000; Analysis of cellular fatty acids and phenotypic relationships of Agrobacterium , Bradyrhizobium , Mesorhizobium , Rhizobium and Sinorhizobium using the Sherlock Microbial Identification System. Int J Syst Evol Microbiol 50:787–801 [CrossRef]
    [Google Scholar]
  21. Vasil'eva L. V., Semenov A. M. 1984; New budding prosthecate bacterium Labrys monahos with radial cell symmetry. Microbiology (English translation of Mikrobiologiia) 53:68–75
    [Google Scholar]
  22. 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 [CrossRef]
    [Google Scholar]
  23. Yamada Y., Aida K., 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 genera Gluconobacter and Acetobacter , especially of the so-called intermediate strain. J Gen Appl Microbiol 15:181–196 [CrossRef]
    [Google Scholar]
  24. Zehr J. P., McReynolds L. A. 1989; Use of degenerate oligonucleotides for amplification of the nifH gene from the marine cyanobacterium Trichodesmium thiebautii . Appl Environ Microbiol 55:2522–2526
    [Google Scholar]
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