1887

Abstract

A novel Gram-staining-negative, rod-shaped, non-motile bacterium, strain AMV16, was isolated from a soil sample collected from a mud volcano located in the Andaman Islands, India. The cell suspension was pale orange. Cells of strain AMV16 were positive for catalase, oxidase, lipase, ornithine decarboxylase and lysine decarboxylase and negative for gelatinase and urease. The fatty acids present were anteiso-C (5.4 %), anteiso-C (4.1 %), C (7.0 %), iso-C (14.4 %), anteiso-C (3.4 %), anteiso-C (3.0 %), C (2.6 %), anteiso-C (3.7 %), iso-C (9.7 %), C (13.8 %), iso-C G (15.9 %), iso-C G (11.1 %) and summed feature 5 (anteiso-C and/or Cω6,9; 5.9 %). Strain AMV16 contained MK-4 as the major respiratory quinone and diphosphatidylglycerol and phosphatidylethanolamine made up the phospholipids. The G+C content of DNA of strain AMV16 was 50.9 mol%. sequence similarity searches based on the 16S rRNA gene sequence indicated that species of the genus were the nearest phylogenetic neighbours, with pairwise sequence similarity ranging from 89.9 to 90.0 %. Phylogenetic analyses indicated that strain AMV16 clustered with the type strains of and at a phylogenetic distance of 14.6 % (85.4 % similarity), distinct from clades representing other genera of the family ‘ Based on the above-mentioned phenotypic and phylogenetic characteristics, strain AMV16 is proposed as a representative of a new genus and novel species, gen. nov., sp. nov. The type strain of is AMV16 ( = DSM 22818  = CCUG 58431).

Funding
This study was supported by the:
  • National Centre for Antarctic and Ocean Research, Goa
  • Department of Biotechnology, New Delhi
  • CSIR Network Project on Biodiversity
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2011-07-01
2024-03-28
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References

  1. Altschul S. F., Gish W., Miller W., Myers E. W., Lipman D. J. 1990; Basic local alignment search tool. J Mol Biol 215:403–410[PubMed] [CrossRef]
    [Google Scholar]
  2. Chun J., Lee J.-H., Jung Y., Kim M., Kim S., Kim B. K., Lim Y. W. 2007; EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 57:2259–2261 [View Article][PubMed]
    [Google Scholar]
  3. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230[PubMed] [CrossRef]
    [Google Scholar]
  4. Felsenstein J. 1993; phylip (phylogeny inference package), version 3.5.1. Department of Genome Sciences, University of Washington; Seattle, USA:
  5. Groth I., Schumann P., Rainey F. A., Martin K., Schuetze B., Augsten K. 1997; Demetria terragena gen. nov., sp. nov., a new genus of actinomycetes isolated from compost soil. Int J Syst Bacteriol 47:1129–1133 [View Article][PubMed]
    [Google Scholar]
  6. Guindon S., Gascuel O. 2003; A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696–704 [View Article][PubMed]
    [Google Scholar]
  7. Hosoya S., Yokota A. 2007; Reclassification of Flexibacter aggregans (Lewin 1969) Leadbetter 1974 as a later heterotypic synonym of Flexithrix dorotheae Lewin 1970. Int J Syst Evol Microbiol 57:1086–1088 [View Article][PubMed]
    [Google Scholar]
  8. Hudson J. A., Schofield K. M., Morgan H. W., Daniel R. M. 1989; Thermonema lapsum gen. nov., sp. nov., a thermophilic gliding bacterium. Int J Syst Bacteriol 39:485–487 [View Article]
    [Google Scholar]
  9. Kimura M. 1980; A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120 [View Article][PubMed]
    [Google Scholar]
  10. Komagata K., Suzuki K. 1987; Lipid and cell wall analysis in bacterial systematics. Methods Microbiol 19:161–207 [View Article]
    [Google Scholar]
  11. 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]
  12. Lányí B. 1987; Classical and rapid identification methods for medically important bacteria. Methods Microbiol 19:1–67 [View Article]
    [Google Scholar]
  13. Lau S. C., Tsoi M. M., Li X., Plakhotnikova I., Dobretsov S., Wu M., Wong P. K., Pawlik J. R., Qian P. Y. 2006; Description of Fabibacter halotolerans gen. nov., sp. nov. and Roseivirga spongicola sp. nov., and reclassification of [Marinicola] seohaensis as Roseivirga seohaensis comb. nov.. Int J Syst Evol Microbiol 56:1059–1065 [View Article][PubMed]
    [Google Scholar]
  14. Marmur J. 1961; A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3:208–218 [View Article]
    [Google Scholar]
  15. Nakagawa Y., Hamana K., Sakane T., Yamasato K. 1997; Reclassification of Cytophaga aprica (Lewin 1969) Reichenbach 1989 in Flammeovirga gen. nov. as Flammeovirga aprica comb. nov. and of Cytophaga diffluens (ex Stanier 1940; emend. Lewin 1969) Reichenbach 1989 in Persicobacter gen. nov. as Persicobacter diffluens comb. nov.. Int J Syst Bacteriol 47:220–223 [View Article]
    [Google Scholar]
  16. Nedashkovskaya O. I., Kim S. B., Lee D. H., Lysenko A. M., Shevchenko L. S., Frolova G. M., Mikhailov V. V., Lee K. H., Bae K. S. 2005a; Roseivirga ehrenbergii gen. nov., sp. nov., a novel marine bacterium of the phylum ‘Bacteroidetes’, isolated from the green alga Ulva fenestrata . Int J Syst Evol Microbiol 55:231–234 [View Article][PubMed]
    [Google Scholar]
  17. Nedashkovskaya O. I., Kim S. B., Suzuki M., Shevchenko L. S., Lee M. S., Lee K. H., Park M. S., Frolova G. M., Oh H. W. et al. 2005b; Pontibacter actiniarum gen. nov., sp. nov., a novel member of the phylum ‘Bacteroidetes’, and proposal of Reichenbachiella gen. nov. as a replacement for the illegitimate prokaryotic generic name Reichenbachia Nedashkovskaya et al. 2003. Int J Syst Evol Microbiol 55:2583–2588 [View Article][PubMed]
    [Google Scholar]
  18. Nedashkovskaya O. I., Vancanneyt M., Kim S. B., Bae K. S. 2010; Reclassification of Flexibacter tractuosus (Lewin 1969) Leadbetter 1974 and ‘Microscilla sericea’ Lewin 1969 in the genus Marivirga gen. nov. as Marivirga tractuosa comb. nov. and Marivirga sericea nom. rev., comb. nov.. Int J Syst Evol Microbiol 60:1858–1863 [View Article][PubMed]
    [Google Scholar]
  19. 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]
  20. Seo H. S., Kwon K. K., Yang S. H., Lee H. S., Bae S. S., Lee J. H., Kim S. J. 2009; Marinoscillum gen. nov., a member of the family ‘Flexibacteraceae’, with Marinoscillum pacificum sp. nov. from a marine sponge and Marinoscillum furvescens nom. rev., comb. nov.. Int J Syst Evol Microbiol 59:1204–1208 [View Article][PubMed]
    [Google Scholar]
  21. Sly L. I., Blackall L. L., Kraat P. C., Tian-Shen T., Sangkhobol V. 1986; The use of second derivative plots for the determination of mol% guanine plus cytosine of DNA by the thermal denaturation method. J Microbiol Methods 5:139–156 [View Article]
    [Google Scholar]
  22. Smibert R. M., Krieg N. R. 1994; Phenotypic characterization. In 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]
  23. Srisukchayakul P., Suwanachart C., Sangnoi Y., Kanjana-Opas A., Hosoya S., Yokota A., Arunpairojana V. 2007; Rapidithrix thailandica gen. nov., sp. nov., a marine gliding bacterium isolated from samples collected from the Andaman sea, along the southern coastline of Thailand. Int J Syst Evol Microbiol 57:2275–2279 [View Article][PubMed]
    [Google Scholar]
  24. 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 [View Article][PubMed]
    [Google Scholar]
  25. Yoon J., Ishikawa S., Kasai H., Yokota A. 2007; Perexilibacter aurantiacus gen. nov., sp. nov., a novel member of the family ‘Flammeovirgaceae’ isolated from sediment. Int J Syst Evol Microbiol 57:964–968 [View Article][PubMed]
    [Google Scholar]
  26. Yoon J., Matsuo Y., Kasai H., Yokota A. 2008; Limibacter armeniacum gen. nov., sp. nov., a novel representative of the family ‘Flammeovirgaceae’ isolated from marine sediment. Int J Syst Evol Microbiol 58:982–986 [View Article][PubMed]
    [Google Scholar]
  27. ZoBell C. E. 1941; Studies on marine bacteria. I. The cultural requirements of heterotrophic aerobes. J Mar Res 4:42–75
    [Google Scholar]
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