1887

Abstract

A novel gammaproteobacterium, designated LnR5-47, was isolated from soil of a ginseng field in Liaoning province, China. The isolate was a Gram-negative, aerobic, non-motile, non-spore-forming rod. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain LnR5-47 belonged to the genus . The isolate was most closely related to GR17-7, GP18-1, Gsoil 3046, DCY45, JS12-10 and IAM 15069 (98.0, 97.9, 97.7, 97.3, 97.2 and 97.1 % 16S rRNA gene sequence similarity, respectively). Chemotaxonomic data (Q-8 as the predominant ubiquinone, and iso-C, iso-Cω9 and iso-C as the major fatty acids) also supported the affiliation of strain LnR5-47 with the genus . However, DNA–DNA relatedness between strain LnR5-47 and its closest phylogenetic neighbours was <25.8 %. Moreover, physiological and biochemical tests phenotypically differentiated the isolate from other members of the genus . Therefore, strain LnR5-47 represents a novel species, for which the name sp. nov. is proposed; the type strain is LnR5-47 ( = KACC 12826 = KCTC 22232 = LMG 24460).

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2011-12-01
2019-10-20
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References

  1. An D.-S. , Lee H.-G. , Lee S.-T. , Im W.-T. . ( 2009; ). Rhodanobacter ginsenosidimutans sp. nov., isolated from soil of a ginseng field in South Korea. . Int J Syst Evol Microbiol 59:, 691–694. [CrossRef] [PubMed]
    [Google Scholar]
  2. Atlas R. M. . ( 1993; ). Handbook of Microbiological Media. Edited by Parks L. C. . . Boca Raton, FL:: CRC Press;.
    [Google Scholar]
  3. Buck J. D. . ( 1982; ). Nonstaining (KOH) method for determination of gram reactions of marine bacteria. . Appl Environ Microbiol 44:, 992–993.[PubMed]
    [Google Scholar]
  4. Bui T. P. N. , Kim Y.-J. , Kim H. , Yang D.-C. . ( 2010; ). Rhodanobacter soli sp. nov., isolated from soil of a ginseng field. . Int J Syst Evol Microbiol 60:, 2935–2939. [CrossRef] [PubMed]
    [Google Scholar]
  5. 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. [CrossRef] [PubMed]
    [Google Scholar]
  6. De Clercq D. , Van Trappen S. , Cleenwerck I. , Ceustermans A. , Swings J. , Coosemans J. , Ryckeboer J. . ( 2006; ). Rhodanobacter spathiphylli sp. nov., a gammaproteobacterium isolated from the roots of Spathiphyllum plants grown in a compost-amended potting mix. . Int J Syst Evol Microbiol 56:, 1755–1759. [CrossRef] [PubMed]
    [Google Scholar]
  7. Ezaki T. , Hashimoto Y. , Yabuuchi E. . ( 1989; ). Fluorometric deoxyribonucleic acid deoxyribonucleic acid hybridization in micro-dilution 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]
  8. Felsenstein J. . ( 1985; ). Confidence limit on phylogenies: an approach using the bootstrap. . Evolution 39:, 783–791. [CrossRef]
    [Google Scholar]
  9. Fitch W. M. . ( 1971; ). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20:, 406–416. [CrossRef]
    [Google Scholar]
  10. 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]
  11. Hiraishi A. , Ueda Y. , Ishihara J. , Mori T. . ( 1996; ). Comparative lipoquinone analysis of influent sewage and activated sludge by high-performance liquid chromatography and photodiode array detection. . J Gen Appl Microbiol 42:, 457–469. [CrossRef]
    [Google Scholar]
  12. Im W.-T. , Lee S.-T. , Yokota A. . ( 2004; ). Rhodanobacter fulvus sp. nov., a β-galactosidase-producing gammaproteobacterium. . J Gen Appl Microbiol 50:, 143–147. [CrossRef] [PubMed]
    [Google Scholar]
  13. Kim M.-K. , Lee J.-W. , Lee K.-Y. , Yang D.-C. . ( 2005; ). Microbial conversion of major ginsenoside Rb1 to pharmaceutically active minor ginsenoside Rd. . J Microbiol 43:, 456–462.[PubMed]
    [Google Scholar]
  14. Kimura M. . ( 1983; ). The Neutral Theory of Molecular Evolution. Cambridge:: Cambridge University Press;.[CrossRef]
    [Google Scholar]
  15. Kumar S. , Nei M. , Dudley J. , Tamura K. . ( 2008; ). mega: a biologist-centric software for evolutionary analysis of DNA and protein sequences. . Brief Bioinform 9:, 299–306. [CrossRef] [PubMed]
    [Google Scholar]
  16. Lee C. S. , Kim K. K. , Aslam Z. , Lee S.-T. . ( 2007; ). Rhodanobacter thiooxydans sp. nov., isolated from a biofilm on sulfur particles used in an autotrophic denitrification process. . Int J Syst Evol Microbiol 57:, 1775–1779. [CrossRef] [PubMed]
    [Google Scholar]
  17. Liu Q.-M. , Im W.-T. , Lee M. , Yang D.-C. , Lee S.-T. . ( 2006; ). Dyadobacter ginsengisoli sp. nov., isolated from soil of a ginseng field. . Int J Syst Evol Microbiol 56:, 1939–1944. [CrossRef] [PubMed]
    [Google Scholar]
  18. Mergaert J. , Cnockaert M. C. , Swings J. . ( 2002; ). Fulvimonas soli gen. nov., sp. nov., a γ-proteobacterium isolated from soil after enrichment on acetylated starch plastic. . Int J Syst Evol Microbiol 52:, 1285–1289. [CrossRef] [PubMed]
    [Google Scholar]
  19. 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]
  20. Moore D. D. , Dowhan D. . ( 1995; ). Preparation and analysis of DNA. . In Current Protocols in Molecular Biology, pp. 2–11. Edited by Ausubel F. M. , Brent R. , Kingston R. E. , Moore D. D. , Seidman J. G. , Smith J. A. , Struhl K. . . New York:: Wiley;.
    [Google Scholar]
  21. Nalin R. , Simonet P. , Vogel T. M. , Normand P. . ( 1999; ). Rhodanobacter lindaniclasticus gen. nov., sp. nov., a lindane-degrading bacterium. . Int J Syst Bacteriol 49:, 19–23. [CrossRef] [PubMed]
    [Google Scholar]
  22. 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]
  23. Sasser M. . ( 1990; ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. . Newark, DE:: MIDI Inc.;
  24. Skerman V. B. D. . ( 1967; ). A Guide to the Identification of the Genera of Bacteria, , 2nd edn.. Baltimore:: Williams & Wilkins;.
    [Google Scholar]
  25. 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]
  26. Ten L. N. , Im W.-T. , Kim M.-K. , Kang M.-S. , Lee S.-T. . ( 2004; ). Development of a plate technique for screening of polysaccharide-degrading microorganisms by using a mixture of insoluble chromogenic substrates. . J Microbiol Methods 56:, 375–382. [CrossRef] [PubMed]
    [Google Scholar]
  27. Ten L. N. , Jung H.-M. , Im W. T. , Yoo S. A. , Lee S.-T. . ( 2008; ). Lysobacter daecheongensis sp. nov., isolated from sediment of stream near the Daechung dam in South Korea. . J Microbiol 46:, 519–524. [CrossRef] [PubMed]
    [Google Scholar]
  28. 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] [PubMed]
    [Google Scholar]
  29. 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. et al. & 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]
  30. Weon H.-Y. , Kim B.-Y. , Hong S.-B. , Jeon Y.-A. , Kwon S.-W. , Go S.-J. , Koo B.-S. . ( 2007; ). Rhodanobacter ginsengisoli sp. nov. and Rhodanobacter terrae sp. nov., isolated from soil cultivated with Korean ginseng. . Int J Syst Evol Microbiol 57:, 2810–2813. [CrossRef] [PubMed]
    [Google Scholar]
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