1887

Abstract

A novel polycyclic aromatic hydrocarbon (PAH)-degrading bacterium, strain H25, which was isolated from deep-sea water of the Indian Ocean, was studied phenotypically, genotypically and phylogenetically. Strain H25 can utilize several PAHs including phenanthrene and fluoranthene as sole carbon sources. The 16S rRNA gene sequence of strain H25 showed the highest similarity with that of TUT562 (96.3 %), and showed lower similarities (92.1–96.0 %) with other members of the genus . The major fatty acids of strain H25 were C 2-OH (3.2 %), C (13.6 %), C 7 (5.2 %), C (13.4 %) and C 7 (57.0 %), which accounted for 92.3 % of the total fatty acids. It had ubiquinone 10 as the major respiratory quinone and spermidine as the major polyamine. All these characteristics were consistent with those of recognized species. Results of DNA–DNA hybridization experiments and BOX-PCR fingerprint comparisons also indicate that strain H25 represents a novel species, for which the name sp. nov. is proposed. The type strain is H25 (=MCCC 1A01080 =CGMCC 1.6784 =LMG 24713).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.002873-0
2009-08-01
2019-12-07
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/59/8/2084.html?itemId=/content/journal/ijsem/10.1099/ijs.0.002873-0&mimeType=html&fmt=ahah

References

  1. Addison, S. L., Foote, S. M., Reid, N. M. & Lloyd-Jones, G. ( 2007; ). Novosphingobium nitrogenifigens sp. nov., a polyhydroxyalkanoate-accumulating diazotroph isolated from a New Zealand pulp and paper wastewater. Int J Syst Evol Microbiol 57, 2467–2471.[CrossRef]
    [Google Scholar]
  2. Alemayehu, D., Gordon, L. M., O'Mahony, M. M., O'Leary, N. D. & Dobson, A. D. W. ( 2004; ). Cloning and functional analysis by gene disruption of a novel gene involved in indigo production and fluoranthene metabolism in Pseudomonas alcaligenes PA-10. FEMS Microbiol Lett 239, 285–293.[CrossRef]
    [Google Scholar]
  3. Ausubel, F. M., Brent, R., Kingston, R. E., Moore, D. D., Seidman, J. G., Smith, J. A. & Struhl, K. (editors) ( 1995; ). Short Protocols in Molecular Biology: a Compendium of Methods from Current Protocols in Molecular Biology, 3rd edn. New York: Wiley.
  4. Balkwill, D. L., Drake, G. R., Reeves, R. H., Fredrickson, J. K., White, D. C., Ringelberg, D. B., Chandler, D. P., Romine, M. F., Kennedy, D. W. & Spadoni, C. M. ( 1997; ). Taxonomic study of aromatic-degrading bacteria from deep-terrestrial-subsurface sediments and description of Sphingomonas aromaticivorans sp. nov., Sphingomonas subterranea sp. nov. and Sphingomonas stygia sp. nov. Int J Syst Bacteriol 47, 191–201.[CrossRef]
    [Google Scholar]
  5. Busse, H.-J. & Auling, G. ( 1988; ). Polyamine pattern as a chemotaxonomic marker within the Proteobacteria. Syst Appl Microbiol 11, 1–8.[CrossRef]
    [Google Scholar]
  6. 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.[CrossRef]
    [Google Scholar]
  7. Collins, M. D. ( 1985; ). Isoprenoid quinone analysis in classification and identification. In Chemical Methods in Bacterial Systematics, pp. 267–287. Edited by M. Goodfellow & D. E. Minnikin. London: Academic Press.
  8. Cui, Z. S. & Shao, Z. Z. ( 2006; ). Characterization of a PAHs degrading marine strain Novosphingobium sp. Phe-8 and its degradative genes. J Xiamen Univ 45, 257–261 (in Chinese).
    [Google Scholar]
  9. Cui, Z., Lai, Q., Dong, C. & Shao, Z. ( 2008; ). Biodiversity of polycyclic aromatic hydrocarbon-degrading bacteria from deep sea sediments of the Middle Atlantic Ridge. Environ Microbiol 10, 2138–2149.[CrossRef]
    [Google Scholar]
  10. Dong, X.-Z. & Cai, M.-Y. ( 2001; ). Determinative Manual for Routine Bacteriology. Beijing: Scientific Press (English translation).
  11. Edwards, N. T. ( 1983; ). Polycyclic aromatic hydrocarbons (PAH's) in the terrestrial environment – a review. J Environ Qual 12, 427–441.
    [Google Scholar]
  12. Harvey, R. G. ( 1991; ). Polycyclic Aromatic Hydrocarbons: Chemistry and Carcinogenicity. New York: Cambridge University Press.
  13. Lim, Y. W., Moon, E. Y. & Chun, J. ( 2007; ). Reclassification of Flavobacterium resinovorum Delaporte and Daste 1956 as Novosphingobium resinovorum comb. nov., with Novosphingobium subarcticum (Nohynek et al. 1996) Takeuchi et al. 2001 as a later heterotypic synonym. Int J Syst Evol Microbiol 57, 1906–1908.[CrossRef]
    [Google Scholar]
  14. Liu, C. L. & Shao, Z. Z. ( 2005; ). Alcanivorax dieselolei sp. nov., a novel alkane-degrading bacterium isolated from sea water and deep-sea sediment. Int J Syst Evol Microbiol 55, 1181–1186.[CrossRef]
    [Google Scholar]
  15. Liu, Z.-P., Wang, B.-J., Liu, Y.-H. & Liu, S.-J. ( 2005; ). Novosphingobium taihuense sp. nov., a novel aromatic-compound-degrading bacterium isolated from Taihu Lake, China. Int J Syst Evol Microbiol 55, 1229–1232.[CrossRef]
    [Google Scholar]
  16. Mesbah, M. & Whitman, W. B. ( 1989; ). Measurement of deoxyguanosine/thymidine ratios in complex mixtures by high-performance liquid chromatography for determination of the mole percentage guanine+cytosine of DNA. J Chromatogr 479, 297–306.[CrossRef]
    [Google Scholar]
  17. Mrozik, A., Seget, Z. P. & Labuzek, S. ( 2004; ). Changes in whole cell-derived fatty acids induced by naphthalene in bacteria from genus Pseudomonas. Microbiol Res 159, 87–95.[CrossRef]
    [Google Scholar]
  18. Nohynek, L. J., Nurmiaho-Lassila, E.-L., Suhonen, E. L., Busse, H.-J., Mohammadi, M., Hantula, J., Rainey, F. & Salkinoja-Salonen, M. S. ( 1996; ). Description of chlorophenol-degrading Pseudomonas sp. strains KF1T, KF3, and NKF1 as a new species of the genus Sphingomonas, Sphingomonas subarctica sp. nov. Int J Syst Bacteriol 46, 1042–1055.[CrossRef]
    [Google Scholar]
  19. Rzhetsky, A. & Nei, M. ( 1992; ). A simple method for estimating and testing minimum-evolution trees. Mol Biol Evol 9, 945–967.
    [Google Scholar]
  20. Rzhetsky, A. & Nei, M. ( 1993; ). Theoretical foundation of the minimum-evolution method of phylogenetic inference. Mol Biol Evol 10, 1073–1095.
    [Google Scholar]
  21. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  22. Shieh, W. Y., Chen, Y.-W., Chaw, S.-M. & Chiu, H.-H. ( 2003; ). Vibrio ruber sp. nov., a red, facultatively anaerobic, marine bacterium isolated from sea water. Int J Syst Evol Microbiol 53, 479–484.[CrossRef]
    [Google Scholar]
  23. Sohn, J. H., Kwon, K. K., Kang, J.-H., Jung, H.-B. & Kim, S.-J. ( 2004; ). Novosphingobium pentaromativorans sp. nov., a high-molecular-mass polycyclic aromatic hydrocarbon-degrading bacterium isolated from estuarine sediment. Int J Syst Evol Microbiol 54, 1483–1487.[CrossRef]
    [Google Scholar]
  24. 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]
  25. Suess, M. J. ( 1976; ). The environmental load and cycle of polycyclic aromatic hydrocarbons. Sci Total Environ 6, 239–250.[CrossRef]
    [Google Scholar]
  26. Suzuki, S. & Hiraishi, A. ( 2007; ). Novosphingobium naphthalenivorans sp. nov., a naphthalene-degrading bacterium isolated from polychlorinated-dioxin-contaminated environments. J Gen Appl Microbiol 53, 221–228.[CrossRef]
    [Google Scholar]
  27. Takeuchi, M., Hamana, K. & Hiraishi, A. ( 2001; ). Proposal of the genus Sphingomonas sensu stricto and three new genera, Sphingobium, Novosphingobium and Sphingopyxis, on the basis of phylogenetic and chemotaxonomic analyses. Int J Syst Evol Microbiol 51, 1405–1417.
    [Google Scholar]
  28. Tiirola, M. A., Busse, H.-J., Kämpfer, P. & Männistö, M. ( 2005; ). Novosphingobium lentum sp. nov., a psychrotolerant bacterium from a polychlorophenol bioremediation process. Int J Syst Evol Microbiol 55, 583–588.[CrossRef]
    [Google Scholar]
  29. Versalovic, J., Koeuth, T. & Lupski, J. R. ( 1991; ). Distribution of repetitive DNA sequences in eubacteria and application to fingerprinting of bacterial genomes. Nucleic Acids Res 19, 6823–6831.[CrossRef]
    [Google Scholar]
  30. Wang, B., Lai, Q., Cui, Z., Tan, T. & Shao, Z. ( 2008; ). A pyrene-degrading consortium from deep-sea sediment of the west Pacific and its key member Cycloclasticus sp. P1. Environ Microbiol 10, 1948–1963.[CrossRef]
    [Google Scholar]
  31. 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]
  32. Yuan, J., Lai, Q., Zheng, T. & Shao, Z. ( 2008; ). Polycyclic aromatic hydrocarbon-degrading bacterium Novosphingobium sp. H25 isolated from deep sea and its degrading genes. Acta Microbiol Sin 48, 1–6 (in Chinese).
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.002873-0
Loading
/content/journal/ijsem/10.1099/ijs.0.002873-0
Loading

Data & Media loading...

Supplements

rep-PCR comparision of strain H25 and related type strains. Lanes: 1, strain H25 ; 2, DSM 18518 ; 3, US6-1 ; 4, KF1 ; M, markers.

IMAGE

Transmission electron micrograph of negatively stained cells of strain H25 grown on 216L agar for 24 h.

IMAGE

[PDF file of Supplementary Tables S1-S3](128 KB)

PDF

Most Cited This Month

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