1887

Abstract

One beige-pigmented, Gram-staining-negative, rod-shaped bacterium, strain E3/2, was isolated from a zebrafish, Phylogenetic analysis based on nearly full-length 16S rRNA gene sequences showed that the isolate shared 97.7 % 16S rRNA gene sequence similarity to the species and between 97.4 to 97.0 % to some species of the genera and , including , , , , , , and Sequence similarities to all other species were below 97 %. The main cellular fatty acids of the strain were summed feature 3 fatty acids (C 7/iso-C 2-OH), C 3-OH, C and C. The polyamine pattern of strain E3/2 contained predominantly putrescine and 2-hydroxyputrescine. The major quinone was ubiquinone Q-8. Major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. Based on phylogenetic, chemotaxonomic, genomic and phenotypic analyses we propose a novel species of the genus named sp. nov., with strain E3/2 (=LMG 29678=CCM 8698) as the type strain.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001408
2016-11-01
2022-12-07
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/66/11/4671.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001408&mimeType=html&fmt=ahah

References

  1. Altenburger P., Kämpfer P., Makristathis A., Lubitz W., Busse H.-J. 1996; Classification of bacteria isolated from a medieval wall painting. J Biotechnol 47:39–52 [View Article]
    [Google Scholar]
  2. Brosius J., Dull T., Sleeter D., Noller H. 1978; Gene organization and primary structure of a ribosomal RNA operon from Escherichia coli. J Mol Biol 148:107–127 [View Article]
    [Google Scholar]
  3. Busse H.-J., Auling G. 1988; Polyamine pattern as a chemotaxonomic marker within the Proteobacteria. Syst Appl Microbiol 11:1–8 [View Article]
    [Google Scholar]
  4. Busse H.-J., Bunka S., Hensel A., Lubitz W. 1997; Discrimination of members of the family Pasteurellaceae based on polyamine patterns. Int J Syst Bacteriol 47:698–708 [View Article]
    [Google Scholar]
  5. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [Google Scholar]
  6. Felsenstein J. 2005 PHYLIP (phylogeny inference package) version 3.6. Distributed by the author Department of Genome Sciences, University of Washington, Seattle, USA:
  7. Garrity G. M., Bell J. A., Lilburn T. 2005; Family II. Oxalobacteraceae fam. nov. In Bergey’s Manual of Systematic Bacteriology, 2nd edn. vol. 2C p. 623 Edited by Brenner D. J., Krieg N. R., Staley J. T., Garrity G. M. New York: Springer;
    [Google Scholar]
  8. Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. (editors) 1994 Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology;
    [Google Scholar]
  9. Haffter P., Granato M., Brand M., Mullins M. C., Hammerschmidt M., Kane D. A., Odenthal J., van Eeden F. J. M., Jiang Y.-J. et al. 1996; The identification of genes with unique and essential functions in the development of the zebrafish, Danio rerio. Development 123:1–36[PubMed]
    [Google Scholar]
  10. Jukes T. H., Cantor C. R. 1969; Evolution of the protein molecules. In Mammalian Protein Metabolism pp 21–132 Edited by Munro H. N. New York: Academic Press; [CrossRef]
    [Google Scholar]
  11. Kämpfer P., Steiof M., Dott W. 1991; Microbiological characterization of a fuel-oil contaminated site including numerical identification of heterotrophic water and soil bacteria. Microb Ecol 21:227–251 [View Article][PubMed]
    [Google Scholar]
  12. Kämpfer P., Kroppenstedt R. M. 1996; Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. Can J Microbiol 42:989–1005 [View Article]
    [Google Scholar]
  13. Kämpfer P., Wellner S., Lohse K., Martin K., Lodders N. 2012; Duganella phyllosphaerae sp. nov., isolated from the leaf surface of Trifolium repens and proposal to reclassify Duganella violaceinigra into a novel genus as Pseudoduganella violceinigra gen. nov., comb. nov. Syst Appl Microbiol 35:19–23 [View Article][PubMed]
    [Google Scholar]
  14. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. et al. 2012; Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62:716–721 [View Article][PubMed]
    [Google Scholar]
  15. Lane D. J. 1991; 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics pp. 115–175 Edited by Stackebrandt E., Goodfellow M. Chichester: Wiley;
    [Google Scholar]
  16. Li W. J., Zhang Y. Q., Park D. J., Li C. T., Xu L. H., Kim C. J., Jiang C. L. 2004; Duganella violaceinigra sp. nov., a novel mesophilic bacterium isolated from forest soil. Int J Syst Evol Microbiol 54:1811–1814 [View Article][PubMed]
    [Google Scholar]
  17. Ludwig W., Strunk O., Westram R., Richter L., Meier H., Yadhukumar, Buchner A., Lai T., Steppi S. et al. 2004; ARB: a software environment for sequence data. Nucleic Acids Res 32:1363–1371 [View Article][PubMed]
    [Google Scholar]
  18. Madhaiyan M., Poonguzhali S., Saravanan V. S., Hari K., Lee K.-C., Lee J.-S. 2013; Duganella sacchari sp. nov. and Duganella radicis sp. nov., two novel species isolated from rhizosphere of field-grown sugar cane. Int J Syst Evol Microbiol 63:1126–1131 [View Article][PubMed]
    [Google Scholar]
  19. Pruesse E., Peplies J., Glöckner F. O. 2012; SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics 28:1823–1829 [View Article][PubMed]
    [Google Scholar]
  20. Stamatakis A. 2006; RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22:2688–2690 [View Article][PubMed]
    [Google Scholar]
  21. Stolz A., Busse H.-J., Kämpfer P. 2007; Pseudomonas knackmussii sp. nov. Int J Syst Evol Microbiol 57:572–576 [View Article][PubMed]
    [Google Scholar]
  22. Tindall B. J. 1990a; Lipid composition of Halobacterium lacusprofundi. FEMS Microbiol Lett 66:199–202 [View Article]
    [Google Scholar]
  23. Tindall B. J. 1990b; A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 13:128–130 [View Article]
    [Google Scholar]
  24. Yarza P., Richter M., Peplies J., Euzeby J., Amann R., Schleifer K. H., Ludwig W., Glöckner F. O., Rosselló-Móra R. 2008; The all-species living tree project: a 16S rRNA-based phylogenetic tree of all sequenced type strains. Syst Appl Microbiol 31:241–250 [View Article][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001408
Loading
/content/journal/ijsem/10.1099/ijsem.0.001408
Loading

Data & Media loading...

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