1887

Abstract

A Gram-stain-positive, non-motile, coccus-shaped bacterium, strain THG-a14, was isolated from soil of Gyeyang mountain in Incheon, Republic of Korea. The isolate grew optimally at 28 °C, at pH 6.5–7.5 and with 0–3 % (w/v) NaCl. Based on 16S rRNA gene sequence comparisons, strain THG-a14 was closely related to 5516T-20 (97.7 %), BXN5-13 (97.6 %), ‘P. ’ L1b-b9 (97.4 %) and MSL-03 (97.2 %). The DNA G+C content of strain THG-a14 was 71.6 mol%. In DNA–DNA hybridization, the DNA–DNA relatedness between strain THG-a14 and its closest phylogenetically neighbours was below 50.0 %. Strain THG-a14 was characterized chemotaxonomically as having -diaminopimelic acid in the cell-wall peptidoglycan. Strain THG-a14 contained glucose and ribose as whole-cell-wall sugars and menaquinone MK-8(H) as the major isoprenoid quinone. Polar lipids in strain THG-a14 consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphoaminoglycolipids, unidentified phospholipids and unidentified lipids. The major fatty acids were iso-C , iso-C and C ω8. On the basis of our polyphasic taxonomy study, strain THG-a14 represents a novel species within the genus , for which the name sp. nov. is proposed. The type strain is THG-a14 ( = KACC 17892 = JCM 19837).

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2015-08-01
2020-01-22
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References

  1. Collins M.D. , Jones D. . ( 1981;). Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implication. Microbiol Rev 45: 316–354. [PubMed]
    [Google Scholar]
  2. Dastager S.G. , Lee J.-C. , Ju Y.-J. , Park D.-J. , Kim C.-J. . ( 2008;). Phycicoccus bigeumensis sp. nov., a mesophilic actinobacterium isolated from Bigeum Island, Korea. Int J Syst Evol Microbiol 58: 2425–2428. [PubMed] [CrossRef]
    [Google Scholar]
  3. 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: 224–229.[CrossRef]
    [Google Scholar]
  4. Felsenstein J. . ( 1985;). Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39: 783–791.[CrossRef]
    [Google Scholar]
  5. 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]
  6. 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: 143–153. [PubMed] [CrossRef]
    [Google Scholar]
  7. 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]
  8. 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]
  9. Kim H. , Oh H.W. , Park D.S. , Lee K.H. , Kim S.U. , Park H.M. , Bae K.S. . ( 2012a;). Phycicoccus ochangensis sp. nov., isolated from soil of a potato cultivation field. J Microbiol 50: 349–353. [PubMed] [CrossRef]
    [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 . ( 2012b;). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62: 716–721. [PubMed] [CrossRef]
    [Google Scholar]
  11. Kimura M. . ( 1983;). The Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press;.[CrossRef]
    [Google Scholar]
  12. Lee S.D. . ( 2006;). Phycicoccus jejuensis gen. nov., sp. nov., an actinomycete isolated from seaweed. Int J Syst Evol Microbiol 56: 2369–2373. [PubMed] [CrossRef]
    [Google Scholar]
  13. Lee S.D. . ( 2013;). Phycicoccus badiiscoriae sp. nov., a novel actinomycete isolated from scoria. Int J Syst Evol Microbiol 63: 989–994. [PubMed] [CrossRef]
    [Google Scholar]
  14. McConaughy B.L. , Laird C.D. , McCarthy B.J. . ( 1969;). Nucleic acid reassociation in formamide. Biochemistry 8: 3289–3295. [PubMed] [CrossRef]
    [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: 159–167.[CrossRef]
    [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: 104–117.[CrossRef]
    [Google Scholar]
  17. Minnikin D.E. , O'Donnell A.G. , Goodfellow M. , Alderson G. , Athalye M. , Schaal A. , Parlett J.H. . ( 1984;). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2: 233–241.[CrossRef]
    [Google Scholar]
  18. Moore D.D. , Dowhan D. . ( 1995;). Preparation and analysis of DNA. . In Current Protocols in Molecular Biology, pp. 2–11. Edited by Ausubel F. W. , Brent R. , Kingston R. E. , Moore D. D. , Seidman J. G. , Smith J. A. , Struhl K. . New York: Wiley;.
    [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. Sasser M. . ( 1990;). Identification of bacteria by gas chromatography of cellular fatty acids MIDI Technical Note 101 Newark, DE: MIDI Inc;.
    [Google Scholar]
  21. Schleifer K.H. , Kandler O. . ( 1972;). Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36: 407–477. [PubMed]
    [Google Scholar]
  22. 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: 625–636. [PubMed] [CrossRef]
    [Google Scholar]
  23. Stackebrandt E. , Rainey F.A. , Ward-Rainey N.L. . ( 1997;). Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int J Syst Bacteriol 47: 479–491.[CrossRef]
    [Google Scholar]
  24. Staneck J.L. , Roberts G.D. . ( 1974;). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28: 226–231. [PubMed]
    [Google Scholar]
  25. Tamaoka J. , Katayama-Fujimura A. , Kuraishi H. . ( 1983;). Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. J Appl Bacteriol 54: 31–36.[CrossRef]
    [Google Scholar]
  26. 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: 2731–2739. [PubMed] [CrossRef]
    [Google Scholar]
  27. 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. [PubMed] [CrossRef]
    [Google Scholar]
  28. Wang L. , An D.S. , Jin F.X. , Lee S.T. , Im W.T. , Bae H.M. . ( 2011;). Phycicoccus ginsenosidimutans sp. nov., isolated from soil of a ginseng field. Int J Syst Evol Microbiol 61: 524–528. [PubMed] [CrossRef]
    [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. , 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. Weisburg W.G. , Barns S.M. , Pelletier D.A. , Lane D.J. . ( 1991;). 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173: 697–703. [PubMed]
    [Google Scholar]
  31. Weon H.Y. , Yoo S.H. , Kim B.Y. , Schumann P. , Kroppenstedt R.M. , Hong S.K. , Kwon S.W. . ( 2008;). Phycicoccus aerophilus sp. nov., isolated from air. Int J Syst Evol Microbiol 58: 2389–2392. [PubMed] [CrossRef]
    [Google Scholar]
  32. Yoon J.H. , Lee S.Y. , Kang S.J. , Oh T.K. . ( 2008;). Phycicoccus dokdonensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 58: 597–600. [PubMed] [CrossRef]
    [Google Scholar]
  33. Zhang J.Y. , Liu X.Y. , Liu S.J. . ( 2011;). Phycicoccus cremeus sp. nov., isolated from forest soil, and emended description of the genus Phycicoccus . Int J Syst Evol Microbiol 61: 71–75. [PubMed] [CrossRef]
    [Google Scholar]
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