1887

Abstract

A taxonomic study was carried out on strain A-11-3, which was isolated from an oil-enriched consortia from the surface seawater of Hong-Deng dock in the Straits of Malacca and Singapore. Cells were aerobic, Gram-negative, non-spore-forming irregular rods. The strain was catalase- and oxidase-negative. It grew on a restricted spectrum of organic compounds, including some organic acids and alkanes. 16S rRNA gene sequence comparisons showed that strain A-11-3 was most closely related to the type strains of (96.8 % sequence similarity), (96.8 %), (94.8 %), (94.2 %) and (94.0 %). The predominant fatty acids were C (31.2 %), C 7 (24.8 %), C (9.6 %), C (8.3 %), C 7 (8.3 %) and C 3-OH (5.1 %). The G+C content of the genomic DNA was 54.7 mol%. Moreover, the strain produced lipopeptides as its surface-active compounds. According to physiological and biochemical tests, DNA–DNA hybridization results and sequence comparisons of the 16S–23S internal transcribed spacer, the gene and the alkane hydroxylase gene , strain A-11-3 was affiliated with the genus but could be readily distinguished from recognized species. Therefore strain A-11-3 represents a novel species of the genus for which the name sp. nov. is proposed. The type strain is A-11-3 (=CGMCC 1.7084=LMG 24624=MCCC 1A01496).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.001552-0
2009-06-01
2019-12-08
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/59/6/1474.html?itemId=/content/journal/ijsem/10.1099/ijs.0.001552-0&mimeType=html&fmt=ahah

References

  1. 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.
  2. Bruns, A. & Berthe-Corti, L. ( 1999; ). Fundibacter jadensis gen. nov., sp. nov., a new slightly halophilic bacterium, isolated from intertidal sediment. Int J Syst Bacteriol 49, 441–448.[CrossRef]
    [Google Scholar]
  3. Dong, X.-Z. & Cai, M.-Y. ( 2001; ). Determinative Manual for Routine Bacteriology [English translation]. Beijing: Scientific Press.
  4. Fernández-Martínez, J., Pujalte, M. J., García-Martínez, J., Mata, M., Garay, E. & Rodríguez-Valera, F. ( 2003; ). Description of Alcanivorax venustensis sp. nov. and reclassification of Fundibacter jadensis DSM 12178T (Bruns and Berthe-Corti 1999) as Alcanivorax jadensis comb. nov., members of the emended genus Alcanivorax. Int J Syst Evol Microbiol 53, 331–338.[CrossRef]
    [Google Scholar]
  5. García-Martínez, J. & Rodríguez-Valera, F. ( 2000; ). Microdiversity of uncultured marine prokaryotes: the SAR11 cluster and the marine Archaea of Group I. Mol Ecol 9, 935–948.[CrossRef]
    [Google Scholar]
  6. Head, I. M., Jones, D. M. & Röling, W. F. ( 2006; ). Marine microorganisms make a meal of oil. Nat Rev Microbiol 4, 173–182.[CrossRef]
    [Google Scholar]
  7. Liu, C. & Shao, Z. ( 2005a; ). 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]
  8. Liu, C. & Shao, Z. ( 2005b; ). Isolation and characterization of oil-degrading marine micro-organisms. Acta Oceanol Sin 27, 114–120.
    [Google Scholar]
  9. Maneerat, S., Bamba, T., Harada, K., Kobayashi, A., Yamada, H. & Kawai, F. ( 2006; ). A novel crude oil emulsifier excreted in the culture supernatant of a marine bacterium, Myroides sp. strain SM1. Appl Microbiol Biotechnol 70, 254–259.[CrossRef]
    [Google Scholar]
  10. 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]
  11. 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]
  12. Peng, F., Liu, Z., Wang, L. & Shao, Z. ( 2007; ). An oil-degrading bacterium: Rhodococcus erythropolis strain 3C–9 and its biosurfactants. J Appl Microbiol 102, 1603–1611.[CrossRef]
    [Google Scholar]
  13. Rivas, R., Paula García-Fraile, P., Peix, A., Mateos, P. F., Martínez-Molina, E. & Velázquez, E. ( 2007; ). Alcanivorax balearicus sp. nov., isolated from Lake Martel. Int J Syst Evol Microbiol 57, 1331–1335.[CrossRef]
    [Google Scholar]
  14. Rzhetsky, A. & Nei, M. ( 1992; ). A simple method for estimating and testing minimum-evolution trees. Mol Biol Evol 9, 945–967.
    [Google Scholar]
  15. Rzhetsky, A. & Nei, M. ( 1993; ). Theoretical foundation of the minimum-evolution method of phylogenetic inference. Mol Biol Evol 10, 1073–1095.
    [Google Scholar]
  16. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  17. Shien, 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]
  18. Smits, T. H. M., Balada, S. B., Witholt, B. & van Beilen, J. B. ( 2002; ). Functional analysis of alkane hydroxylases from gram-negative and gram-positive bacteria. J Bacteriol 184, 1733–1742.[CrossRef]
    [Google Scholar]
  19. 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]
  20. Tamura, K., Dudley, J., Nei, M. & Kumar, S. ( 2007; ). mega4: Molecular Evolutionary Genetics Analysis 194 (mega) software version 4.0. Mol Biol Evol 24, 1596–1599.[CrossRef]
    [Google Scholar]
  21. Venkateswaran, K., Moser, D. P., Dollhopf, M. E., Lies, D. P., Saffarini, D. A., MacGregor, B. J., Ringelberg, D. B., White, D. C., Nishijima, M. & other authors ( 1999; ). Polyphasic taxonomy of the genus Shewanella and description of Shewanella oneidensis sp. nov. Int J Syst Bacteriol 49, 705–724.[CrossRef]
    [Google Scholar]
  22. 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]
  23. Yakimov, M. M., Golyshin, P. N., Lang, S., Moore, E. R. B., Abraham, W. R., Lünsdorf, H. & Timmis, K. N. ( 1998; ). Alcanivorax borkumensis gen. nov., sp. nov., a new, hydrocarbon-degrading and surfactant producing marine bacterium. Int J Syst Bacteriol 48, 339–348.[CrossRef]
    [Google Scholar]
  24. 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.
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.001552-0
Loading
/content/journal/ijsem/10.1099/ijs.0.001552-0
Loading

Data & Media loading...

Supplements

Neighbour-joining tree based on 16S-23S intergenic sequences (ITS) of strain A-11-3 ( sp. nov.) and recognized species of the genus . [PDF](16 KB)

PDF

Neighbour-joining tree based on partial sequences of strain A-11-3 ( sp. nov.) and recognized species of the genus . [PDF](15 KB)

PDF

Neighbour-joining tree based on partial sequences of strain A-11-3 ( sp. nov.) and recognized species of the genus . [PDF](15 KB)

PDF

Transmission electron micrographs of negatively stained cells of strain A-11-3 ( sp. nov.). [PDF](146 KB)

PDF

Cellular fatty acid profiles of strain A-11-3 ( sp. nov.) and recognized species of the genus . [PDF](88 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