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Abstract

A Gram-stain-positive endophytic bacterium, designated strain YC6957, was isolated from surface-sterilized roots of a halophyte ( Trin.) inhabiting coastal tidal flats of Namhae Island, located on the southern coast of Korea, and was subjected to a polyphasic taxonomic study. Cells were facultatively anaerobic, endospore-forming rods to coccoid rods, motile by a single flagellum. Strain YC6957 was catalase-positive, oxidase-negative and able to grow in the presence of 0–8 % (w/v) NaCl, with optimum growth at 4–5 % (w/v) NaCl. Growth occurred at 15–45 °C (optimal growth at 30–35 °C) and pH 6.0–8.5 (optimal growth at pH 7.0–8.0). The predominant isoprenoid quinone was menaquinone 7 (MK-7). The major cellular fatty acids were C (11.3 %), iso-C (19.2 %) and anteiso-C (36.4 %). The cell-wall peptidoglycan contained -diaminopimelic acid. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The DNA G+C content was 41.6 mol%. Phylogenetic analysis based on the 16S rRNA gene sequence revealed that the isolate belonged to the genus . Strain YC6957 exhibited high 16S rRNA gene sequence similarity to its closest neighbours, LMG 22866 (96.14 %), NCIMB 8773 (95.97 %) and LMG 17892 (95.91 %), and less than 95.84 % similarity to all other type strains in the genus . On the basis of the phylogenetic, physiological and biochemical data, it is suggested that strain YC6957 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is YC6957 ( = KACC 13779  = DSM 22162).

Funding
This study was supported by the:
  • , Brain Korea (BK) 21 project
  • , Ministry of Education, Science and Technology, Korea
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2011-07-01
2020-11-26
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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. 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]
  4. 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 [CrossRef]
    [Google Scholar]
  5. 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]
  6. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [CrossRef]
    [Google Scholar]
  7. Felsenstein J. 2002; phylip (phylogeny inference package), version 3.6a. Distributed by the author Department of Genome Sciences, University of Washington; Seattle, USA:
  8. Gordon R. E., Haynes W. C., Pang C. H.-N. 1973 The Genus Bacillus Agriculture Handbook no. 427 Washington, DC: United States Department of Agriculture;
    [Google Scholar]
  9. 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]
  10. 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]
  11. Heyndrickx M., Logan N. A., Lebbe L., Rodríguez-Díaz M., Forsyth G., Goris J., Scheldeman P., De Vos P. 2004; Bacillus galactosidilyticus sp. nov., an alkali-tolerant beta-galactosidase producer. Int J Syst Evol Microbiol 54:617–621 [CrossRef][PubMed]
    [Google Scholar]
  12. Heyndrickx M., Scheldeman P., Forsyth G., Lebbe L., Rodríguez-Díaz M., Logan N. A., De Vos P. 2005; Bacillus ruris sp. nov., from dairy farms. Int J Syst Evol Microbiol 55:2551–2554 [CrossRef][PubMed]
    [Google Scholar]
  13. Hong T. Y., Meng M. 2003; Biochemical characterization and antifungal activity of an endo-1,3-beta-glucanase of Paenibacillus sp. isolated from garden soil. Appl Microbiol Biotechnol 61:472–478[PubMed] [CrossRef]
    [Google Scholar]
  14. Ji X., Lu G., Gai Y., Zheng C., Mu Z. 2008; Biological control against bacterial wilt and colonization of mulberry by an endophytic Bacillus subtilis strain. FEMS Microbiol Ecol 65:565–573 [CrossRef][PubMed]
    [Google Scholar]
  15. Kämpfer P. 1994; Limits and possibilities of total fatty acid analysis for classification and identification of Bacillus species. Syst Appl Microbiol 17:86–98 [CrossRef]
    [Google Scholar]
  16. Kempf M. J., Chen F., Kern R., Venkateswaran K. 2005; Recurrent isolation of hydrogen peroxide-resistant spores of Bacillus pumilus from a spacecraft assembly facility. Astrobiology 5:391–405 [CrossRef][PubMed]
    [Google Scholar]
  17. Kimura M. 1983 The Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press; [CrossRef]
    [Google Scholar]
  18. 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 [CrossRef]
    [Google Scholar]
  19. 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]
  20. Lányí B. 1987; Classical and rapid identification methods for medically important bacteria. Methods Microbiol 19:1–67 [CrossRef]
    [Google Scholar]
  21. Lim J.-M., Jeon C. O., Lee J. C., Ju Y. J., Park D. J., Kim C.-J. 2006a; Bacillus koreensis sp. nov., a spore-forming bacterium, isolated from the rhizosphere of willow roots in Korea. Int J Syst Evol Microbiol 56:59–63 [CrossRef][PubMed]
    [Google Scholar]
  22. Lim J.-M., Jeon C. O., Lee S.-M., Lee J. C., Xu L. H., Jiang C. L., Kim C. J. 2006b; Bacillus salarius sp. nov., a halophilic, spore-forming bacterium isolated from a salt lake in China. Int J Syst Evol Microbiol 56:373–377 [CrossRef][PubMed]
    [Google Scholar]
  23. Lim J.-M., Jeon C. O., Kim C.-J. 2006c; Bacillus taeanensis sp. nov., a halophilic Gram-positive bacterium from a solar saltern in Korea. Int J Syst Evol Microbiol 56:2903–2908 [CrossRef][PubMed]
    [Google Scholar]
  24. Logan N. A., Berge O., Bishop A. H., Busse H. J., De Vos P., Fritze D., Heyndrickx M., Kämpfer P., Rabinovitch L. et al. 2009; Proposed minimal standards for describing new taxa of aerobic, endospore-forming bacteria. Int J Syst Evol Microbiol 59:2114–2121 [CrossRef][PubMed]
    [Google Scholar]
  25. 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]
  26. 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]
  27. Priest F. G., Goodfellow M., Todd C. 1988; A numerical classification of the genus Bacillus . J Gen Microbiol 134:1847–1882[PubMed]
    [Google Scholar]
  28. Reva O. N., Smirnov V. V., Pettersson B., Priest F. G. 2002; Bacillus endophyticus sp. nov., isolated from the inner tissues of cotton plants (Gossypium sp.). Int J Syst Evol Microbiol 52:101–107[PubMed]
    [Google Scholar]
  29. 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]
  30. 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]
  31. Sasser M. 1990; Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101 . Newark, DE: MIDI, Inc;
  32. 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]
  33. Sgroy V., Cassán F., Masciarelli O., Del Papa M. F., Lagares A., Luna V. 2009; Isolation and characterization of endophytic plant growth-promoting (PGPB) or stress homeostasis-regulating (PSHB) bacteria associated to the halophyte Prosopis strombulifera . Appl Microbiol Biotechnol 85:371–381 [CrossRef][PubMed]
    [Google Scholar]
  34. Singh P. P., Shin Y. C., Park C. S., Chung Y. R. 1999; Biological controls of Fusarium wilt of cucumber by chitinolytic bacteria. Phytopathology 89:92–99 [CrossRef]
    [Google Scholar]
  35. 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]
  36. Spanka R., Fritze D. 1993; Bacillus cohnii sp. nov., a new, obligately alkaliphilic, oval-spore-forming Bacillus species with ornithine and aspartic acid instead of diaminopimelic acid in the cell wall. Int J Syst Bacteriol 43:150–156 [CrossRef][PubMed]
    [Google Scholar]
  37. 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]
  38. 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 [CrossRef][PubMed]
    [Google Scholar]
  39. 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]
  40. Wieser M., Worliczek H., Kämpfer P., Busse H.-J. 2005; Bacillus herbersteinensis sp. nov.. Int J Syst Evol Microbiol 55:2119–2123 [CrossRef][PubMed]
    [Google Scholar]
  41. Xin H., Itoh T., Zhou P., Suzuki K., Nakase T. 2001; Natronobacterium nitratireducens sp. nov., a haloalkaliphilic archaeon isolated from a soda lake in China. Int J Syst Evol Microbiol 51:1825–1829[PubMed] [CrossRef]
    [Google Scholar]
  42. Xu P., Li W. J., Tang S. K., Zhang Y. Q., Chen G. Z., Chen H. H., Xu L. H., Jiang C. L. 2005; Naxibacter alkalitolerans gen. nov., sp. nov., a novel member of the family ‘Oxalobacteraceae’ isolated from China. Int J Syst Evol Microbiol 55:1149–1153 [CrossRef][PubMed]
    [Google Scholar]
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