1887

Abstract

A novel Gram-negative, aerobic, psychrotolerant, alkali-tolerant, heterotrophic and dimorphic prosthecate bacterium, designated strain TAR-001, was isolated from deep-sea floor sediment in Japan. Cells of this strain had a dimorphic life cycle and developed an adhesive stalk at a site not coincident with the centre of the cell pole, and the other type of cell, a swarm cell, had a polar flagellum. Colonies were glossy, viscous and yellowish-white in colour. The temperature, pH and salt concentration range for growth were 2–41 °C, pH 6.5–10.0 and 1–4 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences confirmed that strain TAR-001 belongs to the family of the class , and lies between the genus and the genus . Levels of similarity between the 16S rRNA gene sequence of strain TAR-001 and those of the type strains of species were 93.3–95.7 %; highest sequence similarity was with the type strain of . Levels of sequence similarity between those of the type strains of species were 94.9–96.0 %; highest sequence similarity was with the type strain of . The G+C content of strain TAR-001 was 67.6 mol%. Q-10 was the major respiratory isoprenoid quinone. The major fatty acids were C18 : 1ω7 and C16 : 0, and the presence of 1,2-di--acyl-3--[-glucopyranosyl-(1→4)-α--glucopyranuronosyl]glycerol suggests strain TAR-001 is more closely to the genus than to the genus . The mean DNA–DNA hybridization levels between strain TAR-001 and the type strains of two species of the genus were higher than that of the genus . On the basis of polyphasic biological features and the 16S rRNA gene sequence comparison presented here, strain TAR-001 is considered to represent a novel species of the genus , for which the name sp. nov. is proposed; the type strain is TAR-001 ( = JCM 18150 = CECT 8073).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.043364-0
2013-06-01
2020-01-18
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/63/6/1987.html?itemId=/content/journal/ijsem/10.1099/ijs.0.043364-0&mimeType=html&fmt=ahah

References

  1. Abraham W. R. , Strömpl C. , Meyer H. , Lindholst S. , Moore E. R. , Christ R. , Vancanneyt M. , Tindall B. J. , Bennasar A. et al. ( 1999; ). Phylogeny and polyphasic taxonomy of Caulobacter species. Proposal of Maricaulis gen. nov. with Maricaulis maris (Poindexter) comb. nov. as the type species, and emended description of the genera Brevundimonas and Caulobacter . . Int J Syst Bacteriol 49:, 1053–1073. [CrossRef] [PubMed]
    [Google Scholar]
  2. Abraham W. R. , Strömpl C. , Vancanneyt M. , Bennasar A. , Swings J. , Lünsdorf H. , Smit J. , Moore E. R. . ( 2004; ). Woodsholea maritima gen. nov., sp. nov., a marine bacterium with a low diversity of polar lipids. . Int J Syst Evol Microbiol 54:, 1227–1234. [CrossRef] [PubMed]
    [Google Scholar]
  3. Abraham W. R. , Estrela A. B. , Nikitin D. I. , Smit J. , Vancanneyt M. . ( 2010; ). Brevundimonas halotolerans sp. nov., Brevundimonas poindexterae sp. nov. and Brevundimonas staleyi sp. nov., prosthecate bacteria from aquatic habitats. . Int J Syst Evol Microbiol 60:, 1837–1843. [CrossRef] [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;. [CrossRef]
    [Google Scholar]
  5. Bligh E. G. , Dyer W. J. . ( 1959; ). A rapid method of total lipid extraction and purification. . Can J Biochem Physiol 37:, 911–917. [CrossRef] [PubMed]
    [Google Scholar]
  6. Büsing K. H. , Döll W. , Freytag K. . ( 1953; ). [Bacterial flora of the medicinal leech]. . Arch Mikrobiol 19:, 52–86.[PubMed] [CrossRef]
    [Google Scholar]
  7. Chen H. , Jogler M. , Rohde M. , Klenk H. P. , Busse H. J. , Tindall B. J. , Spröer C. , Overmann J. . ( 2012; ). Reclassification and emended description of Caulobacter leidyi as Sphingomonas leidyi comb. nov., and emendation of the genus Sphingomonas. . Int J Syst Evol Microbiol 62:, 2835–2843. [CrossRef] [PubMed]
    [Google Scholar]
  8. Choi J. H. , Kim M. S. , Roh S. W. , Bae J. W. . ( 2010; ). Brevundimonas basaltis sp. nov., isolated from black sand. . Int J Syst Evol Microbiol 60:, 1488–1492. [CrossRef] [PubMed]
    [Google Scholar]
  9. Estrela A. B. , Abraham W. R. . ( 2010; ). Brevundimonas vancanneytii sp. nov., isolated from blood of a patient with endocarditis. . Int J Syst Evol Microbiol 60:, 2129–2134. [CrossRef] [PubMed]
    [Google Scholar]
  10. 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:, 224–229. [CrossRef]
    [Google Scholar]
  11. Felsenstein J. . ( 1981; ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17:, 368–376. [CrossRef] [PubMed]
    [Google Scholar]
  12. Felsenstein J. . ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39:, 783–791. [CrossRef]
    [Google Scholar]
  13. Fitch W. M. . ( 1971; ). Towards defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20:, 406–416. [CrossRef]
    [Google Scholar]
  14. Fritz I. , Strömpl C. , Nikitin D. I. , Lysenko A. M. , Abraham W. R. . ( 2005; ). Brevundimonas mediterranea sp. nov., a non-stalked species from the Mediterranean Sea. . Int J Syst Evol Microbiol 55:, 479–486. [CrossRef] [PubMed]
    [Google Scholar]
  15. Garrity G. M. , Bell J. A. , Lilburn T. . ( 2005;). Order V Caulobacterales Henrici and Johnson 1935b. . In Bergey’s Manual of Systematic Bacteriology, , 2nd edn., vol. 2C, pp. 287–323. Edited by Garrity G. M. , Brenner D. J. , Krieg N. R. , Staley J. R. . . New York:: Springer;.
    [Google Scholar]
  16. Ivanova E. P. , Zhukova N. V. , Lysenko A. M. , Gorshkova N. M. , Sergeev A. F. , Mikhailov V. V. , Bowman J. P. . ( 2005; ). Loktanella agnita sp. nov. and Loktanella rosea sp. nov., from the north-west Pacific Ocean. . Int J Syst Evol Microbiol 55:, 2203–2207. [CrossRef] [PubMed]
    [Google Scholar]
  17. Jukes T. H. , Cantor C. R. . ( 1969; ). Evolution of protein molecules. . In Mammalian Protein Metabolism, pp. 21–132. Edited by Munro H. N. . . New York:: Academic Press;.
    [Google Scholar]
  18. Kang S. J. , Choi N. S. , Choi J. H. , Lee J. S. , Yoon J. H. , Song J. J. . ( 2009; ). Brevundimonas naejangsanensis sp. nov., a proteolytic bacterium isolated from soil, and reclassification of Mycoplana bullata into the genus Brevundimonas as Brevundimonas bullata comb. nov. . Int J Syst Evol Microbiol 59:, 3155–3160. [CrossRef] [PubMed]
    [Google Scholar]
  19. Kroppenstedt R. M. . ( 1985; ). Fatty acid and menaquinone analysis of actinomycetes and related organisms. . In Chemical Methods in Bacterial Systematics, pp. 173–199. Edited by Goodfellow M. , Minnikin D. E. . . London:: Academic Press;.
    [Google Scholar]
  20. Kumar Y. , Westram R. , Behrens S. , Fuchs B. , Glöckner F. O. , Amann R. , Meier H. , Ludwig W. . ( 2005; ). Graphical representation of ribosomal RNA probe accessibility data using ARB software package. . BMC Bioinformatics 6:, 61. [CrossRef] [PubMed]
    [Google Scholar]
  21. Kumar Y. , Westram R. , Kipfer P. , Meier H. , Ludwig W. . ( 2006; ). Evaluation of sequence alignments and oligonucleotide probes with respect to three-dimensional structure of ribosomal RNA using ARB software package. . BMC Bioinformatics 7:, 240. [CrossRef] [PubMed]
    [Google Scholar]
  22. 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]
  23. Lee S. H. , Shim J. K. , Kim J. M. , Choi H. K. , Jeon C. O. . ( 2011; ). Henriciella litoralis sp. nov., isolated from a tidal flat, transfer of Maribaculum marinum Lai et al. 2009 to the genus Henriciella as Henriciella aquimarina nom. nov. and emended description of the genus Henriciella . . Int J Syst Evol Microbiol 61:, 722–727. [CrossRef] [PubMed]
    [Google Scholar]
  24. Leifson E. , Hugh R. . ( 1954; ). A new type of polar monotrichous flagellation. . J Gen Microbiol 10:, 68–70.[PubMed] [CrossRef]
    [Google Scholar]
  25. Li Y. , Kawamura Y. , Fujiwara N. , Naka T. , Liu H. , Huang X. , Kobayashi K. , Ezaki T. . ( 2004; ). Sphingomonas yabuuchiae sp. nov. and Brevundimonas nasdae sp. nov., isolated from the Russian space laboratory Mir. . Int J Syst Evol Microbiol 54:, 819–825. [CrossRef] [PubMed]
    [Google Scholar]
  26. 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. [CrossRef] [PubMed]
    [Google Scholar]
  27. 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]
  28. Minnikin D. E. , Patel P. V. , Alshamaony L. , Goodfellow M. . ( 1977; ). Polar lipid composition in the classification of Nocardia and related bacteria. . Int J Syst Bacteriol 27:, 104–117. [CrossRef]
    [Google Scholar]
  29. Minnikin D. E. , O’Donnell A. G. , Goodfellow M. , Alderson G. , Athalye M. , Schaal A. , Parlett J. H. . ( 1984; ). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. . J Microbiol Methods 2:, 233–241. [CrossRef]
    [Google Scholar]
  30. Nishijima M. , Araki-Sakai M. , Sano H. . ( 1997; ). Identification of isoprenoid quinones by frit-FAB liquid chromatography–mass spectrometry for the chemotaxonomy of microorganisms. . J Microbiol Methods 28:, 113–122. [CrossRef]
    [Google Scholar]
  31. Poindexter J. S. . ( 1981; ). The caulobacters: ubiquitous unusual bacteria. . Microbiol Rev 45:, 123–179.[PubMed]
    [Google Scholar]
  32. Poindexter J. S. . ( 1999; ). Dimorphic prosthecate bacteria: the genera Caulobacter, Asticcacaulis, Hyphomicrobium, Pedomicrobium, Hyphomonas and Thiodendron . . In The Prokaryotes, , 3rd edn.. Edited by Dworkin M. , Falkow S. , Rosenberg E. , Schleifer K. H. , Stackebrandt E. . . New York:: Springer;.
    [Google Scholar]
  33. Rautela G. S. , Cowling E. B. . ( 1966; ). Simple cultural test for relative cellulolytic activity of fungi. . Appl Microbiol 14:, 892–898.[PubMed]
    [Google Scholar]
  34. Ryu S. H. , Park M. , Lee J. R. , Yun P.-Y. , Jeon C. O. . ( 2007; ). Brevundimonas aveniformis sp. nov., a stalked species isolated from activated sludge. . Int J Syst Evol Microbiol 57:, 1561–1565. [CrossRef] [PubMed]
    [Google Scholar]
  35. 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]
  36. Schmidt J. M. . ( 1981; ). The genera Caulobacter and Asticcacaulis . . In The Prokaryotes, a Handbook on the Habitats, Isolation, andIdentification of Bacteria , vol. 1, pp. 466–476. Edited by Starr M. P. , Stolp H. , Trüper H. G. , Balows A. , Schlegel H. G. . . New York:: Springer;.
    [Google Scholar]
  37. Segers P. , Vancanneyt M. , Pot B. , Torck U. , Hoste B. , Dewettinck D. , Falsen E. , Kersters K. , De Vos P. . ( 1994; ). Classification of Pseudomonas diminuta Leifson and Hugh 1954 and Pseudomonas vesicularis Büsing, Döll, and Freytag 1953 in Brevundimonas gen. nov. as Brevundimonas diminuta comb. nov. and Brevundimonas vesicularis comb. nov., respectively. . Int J Syst Bacteriol 44:, 499–510. [CrossRef] [PubMed]
    [Google Scholar]
  38. Smibert R. M. , Krieg N. R. . ( 1994; ). Phenotypic characteristics. . In Manual of 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]
  39. Stackebrandt E. , Goebel B. M. . ( 1994; ). Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. . Int J Syst Bacteriol 44:, 846–849. [CrossRef]
    [Google Scholar]
  40. Staley J. T. , Konopka A. E. , Dalmasso J. P. . ( 1987; ). Spatial and temporal distribution of Caulobacter spp. in two mesotrophic lakes. . FEMS Microbiol Ecol 45:, 1–6. [CrossRef]
    [Google Scholar]
  41. Strömpl C. , Hold G. L. , Lünsdorf H. , Graham J. , Gallacher S. , Abraham W. R. , Moore E. R. , Timmis K. N. . ( 2003; ). Oceanicaulis alexandrii gen. nov., sp. nov., a novel stalked bacterium isolated from a culture of the dinoflagellate Alexandrium tamarense (Lebour) Balech. . Int J Syst Evol Microbiol 53:, 1901–1906. [CrossRef] [PubMed]
    [Google Scholar]
  42. Swan A. . ( 1954; ). The use of a bile-aesculin medium and of Maxted’s technique of Lancefield grouping in the identification of enterococci (group D streptococci). . J Clin Pathol 7:, 160–163. [CrossRef] [PubMed]
    [Google Scholar]
  43. Tang J. C. , Taniguchi H. , Chu H. , Zhou Q. , Nagata S. . ( 2009; ). Isolation and characterization of alginate-degrading bacteria for disposal of seaweed wastes. . Lett Appl Microbiol 48:, 38–43. [CrossRef] [PubMed]
    [Google Scholar]
  44. Wang J. , Zhang J. , Ding K. , Xin Y. , Pang H. . ( 2012; ). Brevundimonas viscosa sp. nov., isolated from saline soil. . Int J Syst Evol Microbiol 62:, 2475–2479. [CrossRef] [PubMed]
    [Google Scholar]
  45. K. Wilson . ( 1987; ). Preparation of genomic DNA from bacteria. . In Current Protocols in Molecular Biology, pp. 2.4.1–2.4.5. Edited by Ausubel F. M. , Brent R. , Kingston R. E. , Moore D. D. , Seidman J. G. , Smith J. A. , Struhl K. . . New York:: Green Publishing & Wiley-Interscience;.
    [Google Scholar]
  46. Yoon J. H. , Kang S. J. , Oh H. W. , Lee J. S. , Oh T. K. . ( 2006a; ). Brevundimonas kwangchunensis sp. nov., isolated from an alkaline soil in Korea. . Int J Syst Evol Microbiol 56:, 613–617. [CrossRef] [PubMed]
    [Google Scholar]
  47. Yoon J. H. , Kang S. J. , Lee J. S. , Oh T. K. . ( 2006b; ). Brevundimonas terrae sp. nov., isolated from an alkaline soil in Korea. . Int J Syst Evol Microbiol 56:, 2915–2919. [CrossRef] [PubMed]
    [Google Scholar]
  48. Yoon J. H. , Kang S. J. , Lee J. S. , Oh H. W. , Oh T. K. . ( 2007; ). Brevundimonas lenta sp. nov., isolated from soil. . Int J Syst Evol Microbiol 57:, 2236–2240. [CrossRef] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.043364-0
Loading
/content/journal/ijsem/10.1099/ijs.0.043364-0
Loading

Data & Media loading...

Supplements

Supplementary material 

PDF

Most cited articles

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