1887

Abstract

Thirty-five isolates obtained from a marine electroactive biofilm grown on a stainless steel cathode (Genoa, Italy) were investigated by a polyphasic taxonomic approach. Whole-cell fatty acid methyl ester analysis indicated that the isolates belonged to the class and were closely related or belonging to the genus . Genomic fingerprinting using the BOX-PCR primer delineated five clusters of isolates with similar BOX-PCR fingerprints. This study demonstrated that isolates from four of the BOX-PCR clusters belonged to and that the 14 isolates representing BOX-PCR cluster 1 constituted a novel species, which shared 98.4 % 16S rRNA gene sequence similarity with its nearest phylogenetic neighbour, . Both phenotypic and genotypic analyses enabled this novel species, for which the name sp. nov. is proposed, to be differentiated from established species of the genus . The DNA G+C content of sp. nov. is 44.5 mol% and the type strain is LMG 24078 (=CCUG 55340).

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2008-11-01
2019-09-21
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References

  1. Acinas, S. G., Antón, J. & Rodríguez-Valera, F. ( 1999; ). Diversity of free-living and attached bacteria in offshore Western Mediterranean waters as depicted by analysis of genes encoding 16S rRNA. Appl Environ Microbiol 65, 514–522.
    [Google Scholar]
  2. Baker, P. W., Ito, K. & Watanabe, K. ( 2003; ). Marine prosthecate bacteria involved in the ennoblement of stainless steel. Environ Microbiol 5, 925–932.[CrossRef]
    [Google Scholar]
  3. Barrow, G. I. & Feltham, R. K. A. ( 1993; ). Cowan and Steel's Manual for the Identification of Medical Bacteria, 3rd edn. Cambridge: Cambridge University Press.
  4. Baumann, L., Baumann, P., Mandel, M. & Allen, R. D. ( 1972; ). Taxonomy of aerobic marine eubacteria. J Bacteriol 110, 402–429.
    [Google Scholar]
  5. Baumann, P., Baumann, L., Bowditch, R. D. & Beaman, B. ( 1984; ). Taxonomy of Alteromonas: A. nigrifaciens sp. nov., nom. rev.; A. macleodii; and A. haloplanktis. Int J Syst Bacteriol 34, 145–149.[CrossRef]
    [Google Scholar]
  6. Branda, S. S., Vik, S., Friedman, L. & Kolter, R. ( 2005; ). Biofilms: the matrix revisited. Trends Microbiol 13, 20–26.[CrossRef]
    [Google Scholar]
  7. Chiu, H. H., Shieh, W. Y., Lin, S. Y., Tseng, C. M., Chiang, P. W. & Wagner-Döbler, I. ( 2007; ). Alteromonas tagae sp. nov. and Alteromonas simiduii sp. nov., mercury-resistant bacteria isolated from a Taiwanese estuary. Int J Syst Evol Microbiol 57, 1209–1216.[CrossRef]
    [Google Scholar]
  8. Dang, H. & Lovell, C. R. ( 2000; ). Bacterial primary colonization and early succession on surfaces in marine waters as determined by amplified rRNA gene restriction analysis and sequence analysis of 16S rRNA genes. Appl Environ Microbiol 66, 467–475.[CrossRef]
    [Google Scholar]
  9. Edwards, U., Rogall, T., Blöcker, H., Emde, M. & Böttger, E. C. ( 1989; ). Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA. Nucleic Acids Res 17, 7843–7853.[CrossRef]
    [Google Scholar]
  10. 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]
  11. Faimali, M., Chelossi, E., Garaventa, F., Corrà, C., Greco, G. & Mollica, A. ( 2008; ). Evolution of oxygen reduction current and biofilm on stainless steels cathodically polarised in natural aerated seawater. Electrochimica Acta in press
    [Google Scholar]
  12. Flemming, H. C. & Wingender, J. ( 2001; ). Relevance of microbial extracellular polymeric substances (EPSs) – Part II: technical aspects. Water Sci Technol 43, 9–16.
    [Google Scholar]
  13. Gauthier, G., Gauthier, M. & Christen, R. ( 1995; ). Phylogenetic analysis of the genera Alteromonas, Shewanella, and Moritella using genes coding for small-subunit rRNA sequences and division of the genus Alteromonas into two genera, Alteromonas (emended) and Pseudoalteromonas gen. nov., and proposal of twelve new species combinations. Int J Syst Bacteriol 45, 755–761.[CrossRef]
    [Google Scholar]
  14. Hall, T. A. ( 1999; ). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41, 95–98.
    [Google Scholar]
  15. Hayase, N., Sogabe, T., Itou, R., Yamamori, N. & Sunamoto, J. ( 2003; ). Polymer film produced by a marine bacterium. J Biosci Bioeng 95, 72–76.[CrossRef]
    [Google Scholar]
  16. Ivanova, E. P., Zhukova, N. V., Svetashev, V. I., Gorshkova, N. M., Kurilenko, V. V., Frolova, G. M. & Mikhailov, V. V. ( 2000; ). Evaluation of phospholipid and fatty acid compositions as chemotaxonomic markers of Alteromonas-like proteobacteria. Curr Microbiol 41, 341–345.[CrossRef]
    [Google Scholar]
  17. Ivanova, E. P., Bowman, J. P., Lysenko, A. M., Zhukova, N. V., Gorshkova, N. M., Sergeev, A. F. & Mikhailov, V. V. ( 2005; ). Alteromonas addita sp. nov. Int J Syst Evol Microbiol 55, 1065–1068.[CrossRef]
    [Google Scholar]
  18. Kodama, K., Shiozawa, H. & Ishii, A. ( 1993; ). Alteromonas rava sp. nov., a marine bacterium that produces a new antibiotic, thiomarinol. Ann Rep Sankyo Res Lab 45, 131–136.
    [Google Scholar]
  19. Martínez-Checa, F., Béjar, V., Llamas, I., Del Moral, A. & Quesada, E. ( 2005; ). Alteromonas hispanica sp. nov., a polyunsaturated-fatty-acid-producing, halophilic bacterium isolated from Fuente de Piedra, southern Spain. Int J Syst Evol Microbiol 55, 2385–2390.[CrossRef]
    [Google Scholar]
  20. Mast, J., Nanbru, C., van den Berg, T. & Meulemans, G. ( 2005; ). Ultrastructural changes of the tracheal epithelium after vaccination of day-old chickens with the La Sota strain of Newcastle disease virus. Vet Pathol 42, 559–565.[CrossRef]
    [Google Scholar]
  21. Mergaert, J., Verhelst, A., Cnockaert, M. C., Tan, T. L. & Swings, J. ( 2001; ). Characterization of facultative oligotrophic bacteria from polar seas by analysis of their fatty acids and 16S rDNA sequences. Syst Appl Microbiol 24, 98–107.[CrossRef]
    [Google Scholar]
  22. 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]
  23. Pitcher, D. G., Saunders, N. A. & Owen, R. J. ( 1989; ). Rapid extraction of bacterial genomic DNA with guanidium thiocyanate. Lett Appl Microbiol 8, 151–156.[CrossRef]
    [Google Scholar]
  24. Rademaker, J. L. W. & de Bruijn, F. J. ( 1997; ). Characterization and classification of microbes by rep-PCR genomic fingerprinting and computer-assisted pattern analysis. In DNA Markers: Protocols, Applications and Overviews, pp. 151–171. Edited by G. Caetano-Anollés & P. M. Gresshoff. New York: Wiley.
  25. Rademaker, J. L., Hoste, B., Louws, F. J., Kersters, K., Swings, J., Vauterin, L., Vauterin, P. & de Bruijn, F. J. ( 2000; ). Comparison of AFLP and rep-PCR genomic fingerprinting with DNA-DNA homology studies: Xanthomonas as a model system. Int J Syst Evol Microbiol 50, 665–677.[CrossRef]
    [Google Scholar]
  26. Raes, J. & Van De Peer, Y. ( 1999; ). ForCon: a software tool for the conversion of sequence alignments. (http://www.ebi.ac.uk/embnet.news/vol6_1/ForCon/body_forcon.html).
  27. Raguenes, G., Pignet, P., Gauthier, G., Peres, A., Christen, R., Rougeaux, H., Barbier, G. & Guezennec, J. ( 1996; ). Description of a new polymer-secreting bacterium from a deep-sea hydrothermal vent, Alteromonas macleodii subsp. fijiensis, and preliminary characterization of the polymer. Appl Environ Microbiol 62, 67–73.
    [Google Scholar]
  28. Raguenes, G., Cambon-Bonavita, M. A., Lohier, J. F., Boisset, C. & Guezennec, J. ( 2003; ). A novel, highly viscous polysaccharide excreted by an Alteromonas isolated from a deep-sea hydrothermal vent shrimp. Curr Microbiol 46, 448–452.[CrossRef]
    [Google Scholar]
  29. Reichenbach, H. & Dworkin, M. ( 1981; ). Introduction to the gliding bacteria. In The Prokaryotes, vol. 1, pp. 315–327. Edited by M. P. Starr, H. Stolp, H. G. Trüper, A. Balows & H. G. Schlegel. Berlin: Springer.
  30. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  31. Shiozawa, H., Kagasaki, T., Kinoshita, T., Haruyama, H., Domon, H., Utsui, Y., Kodama, K. & Takahashi, S. ( 1993; ). Thiomarinol, a new hybrid antimicrobial antibiotic produced by a marine bacterium. Fermentation, isolation, structure, and antimicrobial activity. J Antibiot (Tokyo) 46, 1834–1842.[CrossRef]
    [Google Scholar]
  32. Sierra, G. ( 1957; ). A simple method for the detection of lipolytic activity of micro-organisms and some observations on the influence of the contact between cells and fatty substrates. Antonie van Leeuwenhoek 23, 15–22.[CrossRef]
    [Google Scholar]
  33. 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]
  34. Tan, T. L. & Rüger, H.-J. ( 1999; ). Enrichment, isolation, and Biolog metabolic fingerprints of oligotrophic bacteria from the Antarctic Ocean. Arch Hydrobiol Spec Issues 54, 255–272.
    [Google Scholar]
  35. Thompson, J. D., Gibson, T. J., Plewniak, F., Jeanmougin, F. & Higgins, D. G. ( 1997; ). The clustal_x windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25, 4876–4882.[CrossRef]
    [Google Scholar]
  36. Van de Peer, Y. & De Wachter, R. ( 1994; ). treecon for Windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment. Comput Appl Biosci 10, 569–570.
    [Google Scholar]
  37. van Gemerden, H. & Kuenen, J. G. ( 1984; ). Strategies for growth and evolution of microorganisms in oligotrophic habitats. In Heterotrophic Activity in the Sea. NATO Conference Series IV. Marine Sciences, vol. 15, pp. 25–54. Edited by J. E. Hobbie & P. J. Williams. New York: Plenum.
  38. Van Trappen, S., Tan, T. L., Yang, J., Mergaert, J. & Swings, J. ( 2004; ). Alteromonas stellipolaris sp. nov., a novel, budding, prosthecate bacterium from Antarctic seas, and emended description of the genus Alteromonas. Int J Syst Evol Microbiol 54, 1157–1163.[CrossRef]
    [Google Scholar]
  39. Versalovic, J., Schneider, M., de Bruijn, F. J. & Lupski, J. R. ( 1994; ). Genomic fingerprinting of bacteria using repetitive sequence-based polymerase chain reaction. Methods Mol Cell Biol 5, 25–40.
    [Google Scholar]
  40. 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]
  41. Yi, H., Bae, K. S. & Chun, J. ( 2004; ). Aestuariibacter salexigens gen. nov., sp. nov. and Aestuariibacter halophilus sp. nov., isolated from tidal flat sediment, and emended description of Alteromonas macleodii. Int J Syst Evol Microbiol 54, 571–576.[CrossRef]
    [Google Scholar]
  42. Yoon, J. H., Kim, I. G., Kang, K. H., Oh, T. K. & Park, Y. H. ( 2003; ). Alteromonas marina sp. nov., isolated from sea water of the East Sea in Korea. Int J Syst Evol Microbiol 53, 1625–1630.[CrossRef]
    [Google Scholar]
  43. Yoon, J. H., Yeo, S. H., Oh, T. K. & Park, Y. H. ( 2004; ). Alteromonas litorea sp. nov., a slightly halophilic bacterium isolated from an intertidal sediment of the Yellow Sea in Korea. Int J Syst Evol Microbiol 54, 1197–1201.[CrossRef]
    [Google Scholar]
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Electron micrographs of cells of sp. nov. [ PDF] 699 KB

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Summary of the DNA G+C contents (mol%) of the strains investigated and the DNA-DNA hybridization values (%). [ PDF] 34 KB

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