1887

Abstract

A Gram-negative, non-spore-forming, endophytic bacterium, strain YC6886, was isolated from the root of a halophyte, , which inhabits coastal areas of Namhae Island off the southern coast of Korea. Cells were non-motile, obligately aerobic rods and formed pale-yellow colonies. The isolate grew at 4–32 °C (optimum 25–28 °C) and at pH 6.5–9.5 (optimum pH 7.5) and grew optimally with 2–3 % (w/v) NaCl, but NaCl was not an absolute requirement for growth. Strain YC6886 produced yellow carotenoid pigments. Strain YC6886 exhibited the highest 16S rRNA gene sequence similarity with MN1-1037 (97.4 %). Sequence similarities between strain YC6886 and other members of the genus were 93.9–94.7 %. DNA–DNA relatedness between strain YC6886 and KCTC 22202 and KCTC 22201 was 27 and 15 %, respectively. The major fatty acids were iso-C, C and Cω9 and minor components were C, C and anteiso-C. The major respiratory quinone was menaquinone 9 and the DNA G+C content was 58.5 mol%. The polar lipid profile was composed of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, an unknown phospholipid and an unknown phosphoglycolipid. On the basis of phenotypic, chemotaxonomic, DNA–DNA hybridization and phylogenetic analysis, strain YC6886 represents a novel species in the genus , for which the name sp. nov. is proposed. The type strain is YC6886 ( = KCTC 22447  = DSM 21608). An emended description of the genus is also presented.

Funding
This study was supported by the:
  • Brain Korea 21 project
  • Ministry of Education, Science and Technology, Korea
  • Ministry of Knowledge Economy, Korea
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2011-08-01
2024-03-28
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References

  1. Ausubel F. W., Brent R., Kingston R. E., Moore D. D., Seidman J. G., Smith J. A., Struhl K. 1995 Current Protocols in Molecular Biology New York: Wiley;
    [Google Scholar]
  2. Cappuccino J. G., Sherman N. 2002 Microbiology: a Laboratory Manual, 6th edn. Menlo Park, CA: Benjamin/Cummings;
    [Google Scholar]
  3. Chung B.-S., Aslam Z., Kim S.-W., Kim G.-G., Kang H.-S., Ahn J.-W., Chung Y.-R. 2008; A bacterial endophyte, Pseudomonas brassicacearum YC5480, isolated from the root of Artemisia sp. producing antifungal and phytotoxic compounds. Plant Pathol J 24:461–468 [View Article]
    [Google Scholar]
  4. Dittmer J. C., Lester R. L. 1964; A simple, specific spray for the detection of phospholipids on thin-layer chromatograms. J Lipid Res 15:126–127[PubMed]
    [Google Scholar]
  5. 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 [View Article]
    [Google Scholar]
  6. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [Google Scholar]
  7. Fitch W. M. 1971; Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416 [View Article]
    [Google Scholar]
  8. 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]
  9. Hendricks C. W., Doyle J. D., Hugley B. 1995; A new solid medium for enumerating cellulose-utilizing bacteria in soil. Appl Environ Microbiol 61:2016–2019[PubMed]
    [Google Scholar]
  10. Kimura M. 1983 The Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press; [CrossRef]
    [Google Scholar]
  11. Kroppenstedt R. M. 1982; Separation of bacterial menaquinones by HPLC using reverse phase (RP18) and a silver loaded ion exchanger as stationary phases. J Liq Chromatogr 5:2359–2367 [View Article]
    [Google Scholar]
  12. Lane D. J. 1991; 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics pp. 115–175 Edited by Stackebrandt E., Goodfellow M. Chichester: Wiley;
    [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. 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 [View Article]
    [Google Scholar]
  15. 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 [View Article]
    [Google Scholar]
  16. Ross H. N. M., Grant W. D., Harris J. E. 1985; Lipids in archaebacterial taxonomy. In Chemical Methods in Bacterial Systematics pp. 289–300 Edited by Goodfellow M., Minnikin D. E. London: Academic Press;
    [Google Scholar]
  17. 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]
  18. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  19. Schaal K. P. 1986; Genus Actinomyces Harz 1877, 133AL . In Bergey’s Manual of Systematic Bacteriology vol. 2 pp. 1383–1418 Edited by Sneath P. H. A., Mair N. S., Sharpe M. E., Holt J. G. Baltimore: Williams & Wilkins;
    [Google Scholar]
  20. 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]
  21. 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 [View Article]
    [Google Scholar]
  22. 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]
  23. 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]
  24. 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 60:249–266 [View Article][PubMed]
    [Google Scholar]
  25. 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. 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 [View Article]
    [Google Scholar]
  26. Xin H., Itoh T., Zhou P., Suzuki K., Kamekura M., Nakase T. 2000; Natrinema versiforme sp. nov., an extremely halophilic archaeon from Aibi salt lake, Xinjiang, China. Int J Syst Evol Microbiol 50:1297–1303[PubMed] [CrossRef]
    [Google Scholar]
  27. Yoon J., Matsuo Y., Katsuta A., Jang J.-H., Matsuda S., Adachi K., Kasai H., Yokota A. 2008; Haloferula rosea gen. nov., sp. nov., Haloferula harenae sp. nov., Haloferula phyci sp. nov., Haloferula helveola sp. nov. and Haloferula sargassicola sp. nov., five marine representatives of the family Verrucomicrobiaceae within the phylum ‘Verrucomicrobia’. Int J Syst Evol Microbiol 58:2491–2500 [View Article][PubMed]
    [Google Scholar]
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