1887

Abstract

Resequencing of the 16S rRNA gene of the type strain of Ding and Yokota 2004 revealed 99.9 % sequence similarity to that of the type strain of (Leifson 1962) Ding and Yokota 2004. This high phylogenetic relatedness of . and . was confirmed by the results of DNA–DNA hybridization between . DSM 10281 and . ATCC BAA-806 (reassociation value 96 %). Therefore, it is proposed to reclassify the type strain of . as a strain of . . However, the genome of the type strain of . is about 0.9 Mb larger than that of the . type strain. This results in a decrease in the reassociation value in the reciprocal DNA–DNA hybridization to 72 %, a level slightly above the threshold for delineating bacterial species. These data and distinctive phenotypic characteristics indicate that the name is a later heterotypic synonym of and permit the description of two novel subspecies, subsp. subsp. nov. (type strain ATCC 14670 =JCM 21423 =DSM 10281) and subsp. subsp. nov., comb. nov. (type strain 7-2 =JCM 21495 =ATCC BAA-806). Three bacterial strains, IEH 4430, IEH 4515 and IEH 8757, isolated from water were found to be the closest relatives of these strains. Strain IEH 8757 was classified as a strain of subsp. . Studies of genotypic and phenotypic features of strains IEH 4430 and IEH 4515 showed that the strains represent a novel species, which is most closely related to and for which the name sp. nov. is proposed (type strain IEH 4430 =DSM 21191 =ATCC BAA-1628).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.009381-0
2010-06-01
2024-03-28
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/60/6/1418.html?itemId=/content/journal/ijsem/10.1099/ijs.0.009381-0&mimeType=html&fmt=ahah

References

  1. Baldani J. I., Baldani V. L. D., Döbereiner J. 2005; Genus III. Herbaspirillum Baldani, Pot, Kirchhof, Falsen, Baldani, Olivares, Hoste, Kersters, Hartmann, Baldani, Baldani, Seldin and Döbereiner 1986a, 90VP emend Gillis and Döbereiner 1996, 808. In Bergey's Manual of Systematic Bacteriology , 2nd edn. vol 2 part C pp 629–636 Edited by Brenner D. J., Krieg N. R., Staley J. T., Garrity G. M. New York: Springer;
    [Google Scholar]
  2. Barton B. M., Harding G. P., Zuccarelli A. J. 1995; A general method for detecting and sizing large plasmids. Anal Biochem 226:235–240 [CrossRef]
    [Google Scholar]
  3. Ding L., Yokota A. 2004; Proposals of Curvibacter gracilis gen. nov., sp. nov. and Herbaspirillum putei sp. nov. for bacterial strains isolated from well water and reclassification of [ Pseudomonas ] huttiensis , [ Pseudomonas ] lanceolata , [ Aquaspirillum ] delicatum and [ Aquaspirillum ] autotrophicum as Herbaspirillum huttiense comb. nov., Curvibacter lanceolatus comb. nov., Curvibacter delicatus comb. nov. and Herbaspirillum autotrophicum comb. nov. Int J Syst Evol Microbiol 54:2223–2230 [CrossRef]
    [Google Scholar]
  4. Döbereiner J. 1995; Isolation and identification of aerobic nitrogen-fixing bacteria from soil and plants. In Methods in Applied Soil Microbiology and Biochemistry pp 134–141 Edited by Alef K., Nannipieri P. London: Academic Press;
    [Google Scholar]
  5. 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]
  6. Forster A. C., McInnes J. L., Skingle D. C., Symons R. H. 1985; Non-radioactive hybridization probes prepared by the chemical labelling of DNA and RNA with a novel reagent, photobiotin. Nucleic Acids Res 13:745–761 [CrossRef]
    [Google Scholar]
  7. Gautom R. K. 1997; Rapid pulsed-field gel electrophoresis protocol for typing of Escherichia coli O157 : H7 and other gram-negative organisms in 1 day. J Clin Microbiol 35:2977–2980
    [Google Scholar]
  8. Goris J., Konstantinidis K. T., Klappenbach J. A., Coenye T., Vandamme P., Tiedje J. M. 2007; DNA–DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 57:81–91 [CrossRef]
    [Google Scholar]
  9. Hall T. A. 1999; BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98
    [Google Scholar]
  10. Hunter S. B., Vauterin P., Lambert-Fair M. A., Van Duyne M. S., Kubota K., Graves L., Wrigley D., Barrett T., Ribot E. 2005; Establishment of a universal size standard strain for use with the PulseNet standardized pulsed-field gel electrophoresis protocols: converting the national databases to the new size standard. J Clin Microbiol 43:1045–1050 [CrossRef]
    [Google Scholar]
  11. Jung S.-Y., Lee M.-H., Oh T.-K., Yoon J.-H. 2007; Herbaspirillum rhizosphaerae sp. nov., isolated from rhizosphere soil of Allium victorialis var. platyphyllum . Int J Syst Evol Microbiol 57:2284–2288 [CrossRef]
    [Google Scholar]
  12. Lapage S. P., Sneath P. H. A., Lessel E. F., Skerman V. B. D., Seeliger H. P. R., Clark W. A. (editors) 1992; International Code of Nomenclature of Bacteria (1990 Revision) Bacteriological Code . Washington, DC: American Society for Microbiology;
    [Google Scholar]
  13. Leifson E. 1962; The bacterial flora of distilled and stored water. III. New species of the genera Corynebacterium , Flavobacterium , Spirillum and Pseudomonas . Int Bull Bacteriol Nomencl Taxon 12:161–170
    [Google Scholar]
  14. MacFaddin J. F. 2000 Biochemical Tests for Identification of Medical Bacteria , 3rd edn. New York: Lippincott, Williams & Wilkins;
    [Google Scholar]
  15. Mesbah M., Premachandran U., Whitman W. B. 1989; Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39:159–167 [CrossRef]
    [Google Scholar]
  16. Rothballer M., Schmid M., Klein I., Gattinger A., Grundmann S., Hartmann A. 2006; Herbaspirillum hiltneri sp. nov., isolated from surface-sterilized wheat roots. Int J Syst Evol Microbiol 56:1341–1348 [CrossRef]
    [Google Scholar]
  17. Sasser M. 1990 Identification of bacteria by gas chromatography of cellular fatty acids , MIDI Technical Note 101 Newark, DE: MIDI Inc;
    [Google Scholar]
  18. Stoltzfus J. R., So R., Malarvithi P. P., Ladha J. K., de Bruijn F. J. 1997; Isolation of endophytic bacteria from rice and assessment of their potential for supplying rice with biologically fixed nitrogen. Plant Soil 194:25–36 [CrossRef]
    [Google Scholar]
  19. 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]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.009381-0
Loading
/content/journal/ijsem/10.1099/ijs.0.009381-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF
This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error