1887

Abstract

A psychrotolerant, facultatively alkaliphilic strain, HT-3, was isolated from a sample of soil immersed in hot-spring water containing hydrocarbons in Toyotomi, Hokkaido, Japan. 16S rRNA gene sequence-based phylogeny suggested that strain HT-3 is a member of the genus and belongs to the group. Cells of the isolate were Gram-negative, aerobic, straight rods, motile by a single polar flagellum. The strain grew at 4–42 °C, with optimum growth at 35 °C at pH 7, and at pH 6–10. It hydrolysed Tweens 20, 40, 60 and 80, but not casein, gelatin, starch or DNA. Its major isoprenoid quinone was ubiquinone-9 (Q-9) and the DNA G+C content was 65.1 mol%. The whole-cell fatty acid profile consisted mainly of C, Cω9 and Cω9. Phylogenetic analyses based on , and sequences revealed that the isolate could be discriminated from species that exhibited more than 97 % 16S rRNA gene sequence similarity and phylogenetic neighbours belonging to the group including the closest relative of the isolate, . DNA–DNA hybridization with . AL15-21 revealed 51±5 % relatedness. Owing to differences in phenotypic properties and phylogenetic analyses based on multilocus gene sequence analysis and DNA–DNA relatedness data, the isolate merits classification in a novel species, for which the name sp. nov. is proposed. The type strain is HT-3 ( = JCM 15604  = NCIMB 14511).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.024612-0
2011-08-01
2020-09-23
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/61/8/1842.html?itemId=/content/journal/ijsem/10.1099/ijs.0.024612-0&mimeType=html&fmt=ahah

References

  1. Ait Tayeb L., Ageron E., Grimont F., Grimont P. A. D. 2005; Molecular phylogeny of the genus Pseudomonas based on rpoB sequences and application for the identification of isolates. Res Microbiol 156:763–773 [CrossRef][PubMed]
    [Google Scholar]
  2. Anzai Y., Kim H., Park J.-Y., Wakabayashi H., Oyaizu H. 2000; Phylogenetic affiliation of the pseudomonads based on 16S rRNA sequence. Int J Syst Evol Microbiol 50:1563–1589 [CrossRef][PubMed]
    [Google Scholar]
  3. 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; [CrossRef]
    [Google Scholar]
  4. Boulton C. A., Ratledge C. 1984; The physiology of hydrocarbon utilizing microorganisms. In Enzyme and Fermentation Biotechnology pp. 11–77 Edited by Wiseman A. New York: Wiley;
    [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. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [CrossRef][PubMed]
    [Google Scholar]
  7. Fitch W. M. 1971; Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416 [CrossRef]
    [Google Scholar]
  8. Hugh R., Leifson E. 1953; The taxonomic significance of fermentative versus oxidative metabolism of carbohydrates by various gram negative bacteria. J Bacteriol 66:24–26[PubMed]
    [Google Scholar]
  9. Kersters K., Ludwig W., Vancanneyt M., De Vos P., Gillis M., Schleifer K.-H. 1996; Recent changes in the classification of pseudomonads: an overview. Syst Appl Microbiol 19:465–477 [CrossRef]
    [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 16:111–120 [CrossRef][PubMed]
    [Google Scholar]
  11. Kiska D. L., Gilligan P. H. 1999; Pseudomonas . In Manual of Clinical Microbiology, 7th edn. pp. 517–525 Edited by Murray P. R., Baron E. J., Pfaller M. A. Washington, DC: American Society for Microbiology;
    [Google Scholar]
  12. Marmur J. 1961; A procedure for the isolation of deoxyribonucleic acid from micro-organisms. J Mol Biol 3:208–218 [CrossRef]
    [Google Scholar]
  13. Moore E. R. B., Mau M., Arnscheidt A., Böttger E. C., Hutson R. A., Collins M. D., van de Peer Y., de Wachter R., Timmis K. T. 1996; The determination and comparison of the 16S rDNA gene sequence of species of the genus Pseudomonas (sensu stricto) and estimation of the natural genetic relationships. Syst Appl Microbiol 19:478–492 [CrossRef]
    [Google Scholar]
  14. Mulet M., Lalucat J., García-Valdés E. 2010; DNA sequence-based analysis of the Pseudomonas species. Environ Microbiol 12:1513–1530[PubMed]
    [Google Scholar]
  15. Palleroni N. J. 1984; Genus I. Pseudomonas Migula 1984, 237AL (Nom. cons. Opin. 5, Jud. Comm. 1952, 237). In Bergey’s Manual of Systematic Bacteriology vol. 1 pp. 141–199 Edited by Krieg N. R., Holt J. G. Baltimore: Williams & Wilkins;
    [Google Scholar]
  16. Palleroni N. J. 1993; Pseudomonas classification. A new case history in the taxonomy of gram-negative bacteria. Antonie van Leeuwenhoek 64:231–251 [CrossRef][PubMed]
    [Google Scholar]
  17. Park Y.-D., Yi H., Baik K. S., Seong C. N., Bae K. S., Moon E. Y., Chun J. 2006; Pseudomonas segetis sp. nov., isolated from soil. Int J Syst Evol Microbiol 56:2593–2595 [CrossRef][PubMed]
    [Google Scholar]
  18. Saha R., Spröer C., Beck B., Bagley S. 2010; Pseudomonas oleovorans subsp. lubricantis subsp. nov., and reclassification of Pseudomonas pseudoalcaligenes ATCC 17440T as later synonym of Pseudomonas oleovorans ATCC 8062T . Curr Microbiol 60:294–300 [CrossRef][PubMed]
    [Google Scholar]
  19. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425[PubMed]
    [Google Scholar]
  20. 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]
  21. 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]
  22. Tamura K., Dudley J., Nei M., Kumar S. 2007; mega4: molecular evolutionary genetic analysis (mega) software version 4.0. Mol Biol Evol 24:1596–1599 [CrossRef][PubMed]
    [Google Scholar]
  23. 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 22:4673–4680 [CrossRef][PubMed]
    [Google Scholar]
  24. Yamahira K., Hirota K., Nakajima K., Morita N., Nodasaka Y., Yumoto I. 2008; Acinetobacter sp. strain Ths, a novel psychrotolerant and alkalitolerant bacterium that utilizes hydrocarbon. Extremophiles 12:729–734 [CrossRef][PubMed]
    [Google Scholar]
  25. Yamamoto S., Harayama S. 1995; PCR amplification and direct sequencing of gyrB genes with universal primers and their application to the detection and taxonomic analysis of Pseudomonas putida strains. Appl Environ Microbiol 61:1104–1109[PubMed]
    [Google Scholar]
  26. Yamamoto S., Kasai H., Arnold D. L., Jackson R. W., Vivian A., Harayama S. 2000; Phylogeny of the genus Pseudomonas: intrageneric structure reconstructed from the nucleotide sequences of gyrB and rpoD genes. Microbiology 146:2385–2394[PubMed]
    [Google Scholar]
  27. 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 51:349–355[PubMed]
    [Google Scholar]
  28. 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 52:85–90[PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.024612-0
Loading
/content/journal/ijsem/10.1099/ijs.0.024612-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Supplementary material 2

PDF

Most cited this month Most Cited RSS feed

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