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Volume 64, Issue Pt_4

sp. nov., isolated from forest soil, and emended description of the genus Free

Abstract

A Gram-staining-negative, strictly aerobic, white-colony-forming bacterium, designated strain 5-10, was isolated from forest soil of Bac Kan Province in Vietnam. Cells were non-motile rods or coccoids, showing oxidase- and catalase-positive reactions. Growth was observed at 10–37 °C (optimum, 30 °C), at pH 5.0–9.0 (optimum, pH 7.0) and in the presence of 0–1.0 % (w/v) NaCl (optimum, 0–0.5 %). The major cellular fatty acids were summed feature 3 (comprising Cω6 and/or Cω7), C, C 3-OH and summed feature 8 (comprising Cω6 and/or Cω7). The G+C content of the genomic DNA was 69.9 mol% and the only respiratory quinone detected was ubiquinone 8 (Q-8). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain 5-10 formed a tight phyletic lineage with members of the genus . Strain 5-10 was most closely related to TTB310 (97.3 %), but the DNA–DNA relatedness level between the two strains was 38.2±1.8 %. Based on phenotypic, chemotaxonomic and molecular features, strain 5-10 was shown to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is 5-10 ( = KACC 17567 = JCM 19319). An emended description of the genus is also proposed.

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Funding
This study was supported by the:
  • National Institute of Biological Resources (NIBR) of the Ministry of Environment (Award 2012-02-044)
  • Technology Development Program for Agriculture and Forestry (TDPAF) of the Ministry for Agriculture, Food and Rural Affairs, Republic of Korea
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2014-04-01
2023-06-10
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References

  1. Bernardet J. F., Nakagawa Y., Holmes B. Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes ( 2002 ). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. . Int J Syst Evol Microbiol 52, 1049–1070. [View Article] [PubMed]
    [Google Scholar]
  2. Bowman J. P. ( 2000 ). Description of Cellulophaga algicola sp. nov., isolated from the surfaces of Antarctic algae, and reclassification of Cytophaga uliginosa (ZoBell and Upham 1944) Reichenbach 1989 as Cellulophaga uliginosa comb. nov.. Int J Syst Evol Microbiol 50, 1861–1868.[PubMed]
    [Google Scholar]
  3. De Luca G., Barakat M., Ortet P., Fochesato S., Jourlin-Castelli C., Ansaldi M., Py B., Fichant G., Coutinho P. M. & other authors ( 2011 ). The cyst-dividing bacterium Ramlibacter tataouinensis TTB310 genome reveals a well-stocked toolbox for adaptation to a desert environment. . PLoS ONE 6, e23784. [View Article] [PubMed]
    [Google Scholar]
  4. Felsenstein J. ( 2002 ). phylip (phylogeny inference package), version 3.6a. . Distributed by the author. Department of Genome Sciences, University of Washington;, Seattle, USA:.
     [Google Scholar]
  5. Gomori G. ( 1955 ). Preparation of buffers for use in enzyme studies. . Methods Enzymol 1, 138–146. [View Article]
    [Google Scholar]
  6. Gonzalez J. M., Saiz-Jimenez C. ( 2002 ). A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. . Environ Microbiol 4, 770–773. [View Article] [PubMed]
    [Google Scholar]
  7. Heulin T., Barakat M., Christen R., Lesourd M., Sutra L., De Luca G., Achouak W. ( 2003 ). Ramlibacter tataouinensis gen. nov., sp. nov., and Ramlibacter henchirensis sp. nov., cyst-producing bacteria isolated from subdesert soil in Tunisia. . Int J Syst Evol Microbiol 53, 589–594. [View Article] [PubMed]
    [Google Scholar]
  8. Jeon C. O., Park W., Ghiorse W. C., Madsen E. L. ( 2004 ). Polaromonas naphthalenivorans sp. nov., a naphthalene-degrading bacterium from naphthalene-contaminated sediment. . Int J Syst Evol Microbiol 54, 93–97. [View Article] [PubMed]
    [Google Scholar]
  9. Jeong S. H., Park M. S., Jin H. M., Lee K., Park W., Jeon C. O. ( 2013 ). Aestuariibaculum suncheonense gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from a tidal flat and emended descriptions of the genera Gaetbulibacter and Tamlana . . Int J Syst Evol Microbiol 63, 332–338. [View Article] [PubMed]
    [Google Scholar]
  10. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. & other authors ( 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]
  11. Kim J. M., Lee S. H., Lee S. H., Choi E. J., Jeon C. O. ( 2013 ). Paenibacillus hordei sp. nov., isolated from naked barley in Korea. . Antonie van Leeuwenhoek 103, 3–9. [View Article] [PubMed]
    [Google Scholar]
  12. Komagata K., Suzuki K. ( 1987 ). Lipid and cell-wall analysis in bacterial systematics. . Methods Microbiol 19, 161–208. [View Article]
    [Google Scholar]
  13. Lányí B. ( 1987 ). Classical and rapid identification methods for medically important bacteria. . Methods Microbiol 19, 1–67. [View Article]
    [Google Scholar]
  14. Lee S. H., Shim J. K., Kim J. M., Choi H. K., Jeon C. O. ( 2011 ). Henriciella litoralis sp. nov., isolated from a tidal flat, transfer of Maribaculum marinum Lai et al. 2009 to the genus Henriciella as Henriciella aquimarina nom. nov. and emended description of the genus Henriciella . . Int J Syst Evol Microbiol 61, 722–727. [View Article] [PubMed]
    [Google Scholar]
  15. Lee S. H., Park M. S., Jung J. Y., Jeon C. O. ( 2012 ). Leuconostoc miyukkimchii sp. nov., isolated from brown algae (Undaria pinnatifida) kimchi. . Int J Syst Evol Microbiol 62, 1098–1103. [View Article] [PubMed]
    [Google Scholar]
  16. Leifson E. ( 1963 ). Determination of carbohydrate metabolism of marine bacteria. . J Bacteriol 85, 1183–1184.[PubMed]
    [Google Scholar]
  17. Lu S., Park M., Ro H. S., Lee D. S., Park W., Jeon C. O. ( 2006 ). Analysis of microbial communities using culture-dependent and culture-independent approaches in an anaerobic/aerobic SBR reactor. . J Microbiol 44, 155–161.[PubMed]
    [Google Scholar]
  18. Rosselló-Mora R., Amann R. ( 2001 ). The species concept for prokaryotes. . FEMS Microbiol Rev 25, 39–67. [View Article] [PubMed]
    [Google Scholar]
  19. Sasser M. ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE:: MIDI Inc;.
     [Google Scholar]
  20. Scott J. E., Quintarelli G., Dellovo M. C. ( 1964 ). The chemical and histochemical properties of Alcian blue. I. The mechanism of Alcian blue staining. . Histochemie 4, 73–85. [View Article] [PubMed]
    [Google Scholar]
  21. 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]
  22. Stamatakis A., Ott M., Ludwig T. ( 2005 ). RAxML-OMP: an efficient program for phylogenetic inference on SMPs. . In Parallel Computing Technologies (Lecture Notes in Computer Science vol. 3506), pp. 288–302. Edited by Malyshkin V. . Berlin & Heidelberg:: Springer;. [View Article]
    [Google Scholar]
  23. 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. [View Article] [PubMed]
    [Google Scholar]
  24. Yurkov V., Stackebrandt E., Holmes A., Fuerst J. A., Hugenholtz P., Golecki J., Gad’on N., Gorlenko V. M., Kompantseva E. I., Drews G. ( 1994 ). Phylogenetic positions of novel aerobic, bacteriochlorophyll a-containing bacteria and description of Roseococcus thiosulfatophilus gen. nov., sp. nov., Erythromicrobium ramosum gen. nov., sp. nov., and Erythrobacter litoralis sp. nov.. Int J Syst Bacteriol 44, 427–434. [View Article] [PubMed]
    [Google Scholar]
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Ramlibacter solisilvae sp. nov., isolated from forest soil, and emended description of the genus Ramlibacter
Int J Syst Evol Microbiol 64, 1317 (2014); https://doi.org/10.1099/ijs.0.058396-0
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