1887

Abstract

A novel alphaproteobacterium, strain LD81, was isolated from the marine macroalga . The bacterium is mesophilic and shows a typical marine growth response. It is a chemoheterotrophic aerobe with the potential for denitrification. Growth optima are 25 °C, pH 5.5 and 3 % NaCl. Strain LD81 has a unique phylogenetic position, not fitting any of the known families of the . The 16S rRNA gene sequence revealed a distant relationship to species of several orders of the , with less than 90 % sequence similarity. Phylogenetically, strain LD81 is related to the type strains of (88.4 % 16S rRNA gene sequence similarity) and the three species (88.9–89.2 %). It forms a cluster with these bacteria and a novel as-yet undescribed isolate (KOPRI 13522; 96.6 % sequence similarity). Strain LD81 has a relatively low DNA G+C content (51.1 mol%) and, due to its distant phylogenetic position from all other alphaproteobacteria, strain LD81 (=NCIMB 14374 =JCM 14845) is considered as the type strain of a novel species within a new genus, for which the name gen. nov., sp. nov. is proposed. The genus represents the type of the new family fam. nov. and order ord. nov.

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2009-02-01
2020-01-21
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References

  1. Altschul, S. F., Madden, T. L., Schäffer, A. A., Zhang, J., Zhang, Z., Miller, W. & Lipman, D. J. ( 1997; ). Gapped blast and psi-blast: a new generation of protein database search programs. Nucleic Acids Res 25, 3389–3402.[CrossRef]
    [Google Scholar]
  2. Boyde, A. & Wood, C. ( 1969; ). Preparation of animal tissues for surface-scanning electron microscopy. J Microsc 90, 221–249.[CrossRef]
    [Google Scholar]
  3. Cho, J.-C. & Giovannoni, S. J. ( 2003; ). Parvularcula bermudensis gen. nov., sp. nov., a marine bacterium that forms a deep branch in the α-Proteobacteria. Int J Syst Evol Microbiol 53, 1031–1036.[CrossRef]
    [Google Scholar]
  4. de Lajudie, P., Willems, A., Pot, B., Dewettinick, D., Maestrojuan, G., Neyra, M., Collins, M. D., Dreyfus, B., Kersters, K. & Gillis, M. ( 1994; ). Polyphasic taxonomy of rhizobia: emendation of the genus Sinorhizobium and description of Sinorhizobium meliloti comb. nov., Sinorhizobium saheli sp. nov., and Sinorhizobium teranga sp. nov. Int J Syst Bacteriol 44, 715–733.[CrossRef]
    [Google Scholar]
  5. Felsenstein, J. ( 1981; ). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef]
    [Google Scholar]
  6. Fukunaga, Y., Kurahashi, M., Tanaka, K., Yanagi, K., Yokota, A. & Harayama, S. ( 2006; ). Pseudovibrio ascidiaceicola sp. nov., isolated from ascidians (sea quirts). Int J Syst Evol Microbiol 56, 343–347.[CrossRef]
    [Google Scholar]
  7. Garrity, G. M., Bell, J. A. & Lilburn, T. ( 2005; ). Class I. Alphaproteobacteria class. nov. In Bergey's Manual of Systematic Bacteriology, vol. 2, part C, p. 1. Edited by D. J. Brenner, N. R. Krieg, J. T. Staley & G. M. Garrity. New York: Springer.
  8. Gärtner, A., Wiese, J. & Imhoff, J. F. ( 2008; ). Amphritea atlantica gen. nov., sp. nov., a gammaproteobacterium from the Logatchev hydrothermal vent field. Int J Syst Evol Microbiol 58, 34–39.[CrossRef]
    [Google Scholar]
  9. Giovannoni, S. & Rappé, M. ( 2000; ). Evolution, diversity, and molecular ecology of marine prokaryotes. In Microbial Ecology of the Oceans, pp. 47–84. Edited by D. L. Kirchman. New York: Wiley-Liss.
  10. Gregersen, T. ( 1978; ). Rapid method for distinction of Gram-negative from Gram-positive bacteria. Eur J Appl Microbiol Biotechnol 5, 123–127.[CrossRef]
    [Google Scholar]
  11. Guindon, S., Lethiec, F., Duroux, P. & Gascuel, O. ( 2005; ). phyml Online – a web server for fast maximum likelihood-based phylogenetic inference. Nucleic Acids Res 33, W557–W559.[CrossRef]
    [Google Scholar]
  12. Kämpfer, P., Müller, C., Mau, M., Neef, A., Auling, G., Busse, H.-J., Osborn, A. M. & Stolz, A. ( 1999; ). Description of Pseudaminobacter gen. nov. with two new species, Pseudaminobacter salicylatoxidans sp. nov. and Pseudaminobacter defluvii sp. nov. Int J Syst Bacteriol 49, 887–897.[CrossRef]
    [Google Scholar]
  13. Kumar, S., Tamura, K. & Nei, M. ( 2004; ). mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150–163.[CrossRef]
    [Google Scholar]
  14. Kwon, K. K., Lee, H.-S., Yang, S. H. & Kim, S.-J. ( 2005; ). Kordiimonas gwangyangensis gen. nov., sp. nov., a marine bacterium isolated from sediments that forms a distinct phyletic lineage (Kordiimonadales ord. nov.) in the ‘Alphaproteobacteria’. Int J Syst Evol Microbiol 55, 2033–2037.[CrossRef]
    [Google Scholar]
  15. Liu, C., Wu, Y., Li, L., Ma, Y. & Shao, Z. ( 2007; ). Thalassospira xiamenensis sp. nov. and Thalassospira profundimaris sp. nov. Int J Syst Evol Microbiol 57, 316–320.[CrossRef]
    [Google Scholar]
  16. López-López, A., Pujalte, M. J., Benlloch, S., Mata-Roig, M., Rosselló-Mora, R., Garay, E. & Rodríguez-Valera, F. ( 2002; ). Thalassospira lucentensis gen. nov., sp. nov., a new marine member of the α-Proteobacteria. Int J Syst Evol Microbiol 52, 1277–1283.[CrossRef]
    [Google Scholar]
  17. Ludwig, W., Stunk, O., Westram, R., Richter, L., Meir, H., Yadhukumar, Buchner, A., Lai, T., Steppi, S. & other authors ( 2004; ). arb: a software environment for sequence data. Nucleic Acids Res 32, 1363–1371.[CrossRef]
    [Google Scholar]
  18. 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]
  19. Rzhetsky, A. & Nei, M. ( 1993; ). Theoretical foundation of the minimum-evolution method of phylogenetic inference. Mol Biol Evol 10, 1073–1095.
    [Google Scholar]
  20. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  21. Sakane, T. & Yokota, A. ( 1994; ). Chemotaxonomic investigation of heterotrophic, aerobic and microaerophilic spirilla, the genera Aquaspirillum, Magnetospirillum and Oceanospirillum. Syst Appl Microbiol 17, 128–134.[CrossRef]
    [Google Scholar]
  22. Sasser, M. ( 1990; ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  23. Satomi, M., Kimura, B., Hamada, T., Harayama, S. & Fujii, T. ( 2002; ). Phylogenetic study of the genus Oceanospirillum based on 16S rRNA and gyrB genes: emended description of the genus Oceanospirillum, description of Pseudospirillum gen. nov., Oceanobacter gen. nov. and Terasakiella gen. nov. and transfer of Oceanospirillum jannaschii and Pseudomonas stanieri to Marinobacterium as Marinobacterium jannaschii comb. nov. and Marinobacterium stanieri comb. nov. Int J Syst Evol Microbiol 52, 739–747.[CrossRef]
    [Google Scholar]
  24. Shi, B.-H., Arunpairojana, V., Palakawong, S. & Yokota, A. ( 2002; ). Tistrella mobilis gen. nov., sp. nov., a novel polyhydroxyalkanoate-producing bacterium belonging to the alpha-Proteobacteria. J Gen Appl Microbiol 48, 335–343.[CrossRef]
    [Google Scholar]
  25. Shieh, W. Y., Lin, Y.-T. & Jean, W. D. ( 2004; ). Pseudovibrio denitrificans gen. nov., sp. nov., a marine, facultatively anaerobic, fermentative bacterium capable of denitrification. Int J Syst Evol Microbiol 54, 2307–2312.[CrossRef]
    [Google Scholar]
  26. Smibert, R. M. & Krieg, N. R. ( 1994; ). Phenotypic characterization. In Methods for General and Molecular Bacteriology, pp. 607–654. Edited by P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, DC: American Society for Microbiology.
  27. Tatusova, T. A. & Madden, T. L. ( 1999; ). blast 2 sequences – a new tool for comparing protein and nucleotide sequences. FEMS Microbiol Lett 174, 247–250.[CrossRef]
    [Google Scholar]
  28. Terasaki, Y. ( 1979; ). Transfer of five species and two subspecies of Spirillum to other genera (Aquaspirillum and Oceanospirillum), with emended description of the species and subspecies. Int J Syst Bacteriol 29, 130–144.[CrossRef]
    [Google Scholar]
  29. Velázquez, E., Igual, J. M., Willems, A., Fernández, M. P., Muñoz, E., Mateos, P. F., Abril, A., Toro, N., Normand, P. & other authors ( 2001; ). Mesorhizobium chacoense sp. nov., a novel species that nodulates Prosopis alba in the Chaco Arido region (Argentina). Int J Syst Evol Microbiol 51, 1011–1021.[CrossRef]
    [Google Scholar]
  30. Wang, Q., Garrity, G. M., Tiedje, J. M. & Cole, J. R. ( 2007; ). Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol 73, 5261–5267.[CrossRef]
    [Google Scholar]
  31. Young, J. M. ( 2003; ). The genus Ensifer Casida 1982 takes priority over Sinorhizobium Chen et al. 1988, and Sinorhizobium morelense Wang et al. 2002 is a later synonym of Ensifer adhaerens Casida 1982. Is the combination ‘Sinorhizobium adhaerens’ (Casida 1982) Willems et al. 2003 legitimate? Request for an Opinion. Int J Syst Evol Microbiol 53, 2107–2110.[CrossRef]
    [Google Scholar]
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vol. , part 2, pp. 350 - 356

16S rRNA gene sequence similarity between strain LD81 and type strains of related species of the . [PDF](16 KB)



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