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Abstract

A Gram-stain-negative, aerobic, motile and rod-shaped strain, THG-DN7.3, was isolated from a waterfall. Strain THG-DN7.3 grew well at 18–28 °C and at pH 6.0–7.5 on Reasoner's 2A agar. Based on 16S rRNA gene sequence comparisons, strain THG-DN7.3 was most closely related to JS4-4 (97.3 % 16S rRNA gene sequence similarity) and SHS5-24 (96.5 %). The G+C content of the genomic DNA was 57.4 mol%. The mean DNA–DNA relatedness of strain THG-DN7.3 with KACC 12607 was 40 ± 1 % (reciprocal 50 ± 2.1 %). The major cellular fatty acids of strain THG-DN7.3 were summed feature 3 (Cω7 and/or Cω6) (47.4 %), C (30.4 %), summed feature 8 (Cω6 and/or Cω7) (6.8 %) and C (6.2 %). The predominant isoprenoid quinone was ubiquinone-8. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The results of the DNA–DNA hybridization and genotypic analysis, in combination with chemotaxonomic and physiological data, demonstrated that strain THG-DN7.3 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is THG-DN7.3 ( = KCTC 42243 = CCTCC AB 2015119).

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2015-11-01
2024-03-29
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References

  1. Eder W., Wanner G., Ludwig W., Busse H.J., Ziemke-Kägeler F., Lang E. ( 2011;). Description of Undibacterium oligocarboniphilum sp. nov., isolated from purified water, and Undibacterium pigrum strain CCUG 49012 as the type strain of Undibacterium parvum sp. nov., and emended descriptions of the genus Undibacterium and the species Undibacterium pigrum . Int J Syst Evol Microbiol 61 384391 [View Article] [PubMed].
    [Google Scholar]
  2. Ezaki T., Hashimoto Y., Yabuuchi E. ( 1989;). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution 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 224229 [View Article].
    [Google Scholar]
  3. Felsenstein J. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 783791 [View Article].
    [Google Scholar]
  4. Garrity G.M., Bell J.A., Lilburn T. ( 2005;). Family II. Oxalobacteraceae fam. nov. . In Bergey's Manual of Systematic Bacteriology, p. 623. Edited by Brenner D. J., Krieg N. R., Staley J. T., Garrity G. M. 2 , 2nd edn.., New York: Springer;.
    [Google Scholar]
  5. Gillis M., De Ley J., De Cleene M. ( 1970;). The determination of molecular weight of bacterial genome DNA from renaturation rates. Eur J Biochem 12 143153 [View Article] [PubMed].
    [Google Scholar]
  6. 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 9598.
    [Google Scholar]
  7. 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 457469 [View Article].
    [Google Scholar]
  8. Kämpfer P., Rosselló-Mora R., Hermansson M., Persson F., Huber B., Falsen E., Busse H.-J. ( 2007;). Undibacterium pigrum gen. nov., sp. nov., isolated from drinking water. Int J Syst Evol Microbiol 57 15101515 [View Article] [PubMed].
    [Google Scholar]
  9. 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 716721 [View Article] [PubMed].
    [Google Scholar]
  10. Kim S.-J., Moon J.-Y., Weon H.-Y., Hong S.-B., Seok S.-J., Kwon S.-W. ( 2014; Undibacterium jejuense sp. nov. and Undibacterium seohonense sp. nov., isolated from soil and freshwater, respectively. Int J Syst Evol Microbiol 64 236241 [View Article] [PubMed].
    [Google Scholar]
  11. Kimura M. ( 1983). The Neutral Theory of Molecular Evolution., Cambridge: Cambridge University Press;. [CrossRef]
    [Google Scholar]
  12. LaneD J. ( 1991;). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115175. Edited by Stackebrandt E., Goodfellow M. Chichester: Wiley;.
    [Google Scholar]
  13. Liu Y.Q., Wang B.J., Zhou N., Liu S.J. ( 2013;). Undibacterium terreum sp. nov., isolated from permafrost soil. Int J Syst Evol Microbiol 63 22962300 [View Article] [PubMed].
    [Google Scholar]
  14. McConaughy B.L., Laird C.D., McCarthy B.J. ( 1969;). Nucleic acid reassociation in formamide. Biochemistry 8 32893295 [View Article] [PubMed].
    [Google Scholar]
  15. 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 159167 [View Article].
    [Google Scholar]
  16. Minnikin D.E., Patel P.V., Alshamaony L., Goodfellow M. ( 1977;). Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 27 104117 [View Article].
    [Google Scholar]
  17. Moore D.D., Dowhan D. ( 1995;). Preparation and Analysis of DNA. . In Current Protocols in Molecular Biology, pp. 211. 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]
  18. Saitou N., Nei M. ( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4 406425 [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. Sheu S.-Y., Lin Y.-S., Chen J.-C., Chen W.-M. ( 2014;). Undibacterium macrobrachii sp. nov., isolated from a freshwater shrimp culture pond. Int J Syst Evol Microbiol 64 10361042 [View Article] [PubMed].
    [Google Scholar]
  21. Stabili L., Gravili C., Tredici S.M., Piraino S., Talà A., Boero F., Alifano P. ( 2008;). Epibiotic Vibrio luminous bacteria isolated from some hydrozoa and bryozoa species. Microb Ecol 56 625636 [View Article] [PubMed].
    [Google Scholar]
  22. 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 846849. [CrossRef]
    [Google Scholar]
  23. Takahashi K., Nei M. ( 2000;). Efficiencies of fast algorithms of phylogenetic inference under the criteria of maximum parsimony, minimum evolution, and maximum likelihood when a large number of sequences are used. Mol Biol Evol 17 12511258 [View Article] [PubMed].
    [Google Scholar]
  24. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. ( 2011;). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28 27312739 [View Article] [PubMed].
    [Google Scholar]
  25. 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 48764882 [View Article] [PubMed].
    [Google Scholar]
  26. Tindall B.J., Rosselló-Móra R., Busse H.J., Ludwig W., Kämpfer P. ( 2010;). Notes on the characterization of prokaryote strains for taxonomic purposes. Int J Syst Evol Microbiol 60 249266 [View Article] [PubMed].
    [Google Scholar]
  27. 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., 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 463464. [CrossRef]
    [Google Scholar]
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