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Volume 63, Issue Pt_1

sp. nov., a member of the family isolated from mangrove sediment, and emended description of the genus Free

Abstract

A novel Gram-negative, rod-shaped, motile bacterium, designated strain AK13, was isolated from a sediment sample collected from mangrove of Namkhana, Sunderbans, West Bengal, India. Strain AK13 was positive for oxidase, DNase and lipase activities and negative for catalase, gelatinase, ornithine decarboxylase, lysine decarboxylase, nitrate reductase, aesculinase and urease activities. The fatty acids were dominated by iso-C, iso-C 3-OH, iso-C, iso-C, iso-Cω9 and summed feature 3 (Cω7 and/or iso-C 2-OH). Strain AK13 contained Q-8 as the major respiratory quinone and diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylserine, two unidentified aminolipids, one unidentified glycolipid and one unidentified lipid as the polar lipids. The DNA G+C content of strain AK13 was 55.2 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the type strain of , of the family (phylum ), was the closest neighbour of strain AK13, with 95.2 % sequence similarity. Other members of the family showed sequence similarities <94.4 %. Based on the phenotypic characteristics and phylogenetic inference, strain AK13 is proposed as a member of a novel species of the genus , sp. nov.; the type strain is AK13 ( = MTCC 11082  = DSM 24914). An emended description of the genus is also provided.

  • Published Online:
Funding
This study was supported by the:
  • Council of Scientific and Industrial Research (CSIR)
  • Department of Biotechnology, Government of India
  • Ministry of Earth Sciences, New Delhi
  • CSIR (Award GAP2131, SIP1308 and SIP1302)
© 2013 IUMS
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2013-01-01
2024-04-19
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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. Bligh E. G., Dyer W. J. ( 1959 ). A rapid method of total lipid extraction and purification. . Can J Biochem Physiol 37, 911–917. [View Article] [PubMed]
    [Google Scholar]
  3. Brosius J., Palmer M. L., Kennedy P. J., Noller H. F. ( 1978 ). Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli . . Proc Natl Acad Sci U S A 75, 4801–4805. [View Article] [PubMed]
    [Google Scholar]
  4. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. ( 1977 ). Distribution of menaquinones in actinomycetes and corynebacteria. . J Gen Microbiol 100, 221–230. [View Article] [PubMed]
    [Google Scholar]
  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., Lethiec F., Duroux P., Gascuel O. ( 2005 ). PHYML Online – a web server for fast maximum likelihood-based phylogenetic inference. . Nucleic Acids Res 33 (Web Server issue), W557–W559. [View Article] [PubMed]
    [Google Scholar]
  7. Johnson J. L. ( 1994 ). Similarity analysis of rRNAs. . In Methods for General and Molecular Bacteriology, pp. 683–700. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  8. Kim O.-S., Cho Y.-J., Lee K., Yoon S.-H., Kim M., Na H., Park S.-C., Jeon Y. S., Lee J.-H., Yi H., Won S., Chun J. ( 2012 ). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62, 716–721. [View Article] [PubMed]
    [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. Lányí B. ( 1987 ). Classical and rapid identification methods for medically important bacteria. . Methods Microbiol 19, 1–67. [View Article]
    [Google Scholar]
  12. Lee E. M., Jeon C. O., Choi I., Chang K. S., Kim C. J. ( 2005 ). Silanimonas lenta gen. nov., sp. nov., a slightly thermophilic and alkaliphilic gammaproteobacterium isolated from a hot spring. . Int J Syst Evol Microbiol 55, 385–389. [View Article] [PubMed]
    [Google Scholar]
  13. Marmur J. ( 1961 ). A procedure for the isolation of deoxyribonucleic acid from microorganisms. . J Mol Biol 3, 208–218. [View Article]
    [Google Scholar]
  14. Myers E. W., Miller W. ( 1988 ). Optimal alignments in linear space. . Comput Appl Biosci 4, 11–17.[PubMed]
    [Google Scholar]
  15. Pandey K. K., Mayilraj S., Chakrabarti T. ( 2002 ). Pseudomonas indica sp. nov., a novel butane-utilizing species. . Int J Syst Evol Microbiol 52, 1559–1567. [View Article] [PubMed]
    [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.[PubMed]
    [Google Scholar]
  17. 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]
  18. 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]
  19. Tamura K., Dudley J., Nei M., Kumar S. ( 2007 ). mega4: molecular evolutionary genetics analysis (mega) software version 4.0. . Mol Biol Evol 24, 1596–1599. [View Article] [PubMed]
    [Google Scholar]
  20. 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]
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Silanimonas mangrovi sp. nov., a member of the family Xanthomonadaceae isolated from mangrove sediment, and emended description of the genus Silanimonas
Int J Syst Evol Microbiol 63, 274 (2013); https://doi.org/10.1099/ijs.0.038406-0
/content/journal/ijsem/10.1099/ijs.0.038406-0
/content/journal/ijsem/10.1099/ijs.0.038406-0
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