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Abstract

A novel Gram-stain-positive, motile, catalase- and oxidase-positive, aerobic, endospore-forming, peritrichous, rod-shaped bacterium, designated YIM M13235, was isolated from a marine sediment sample collected from the South China Sea. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM M13235 belonged to the genus . The strain grew optimally at 30 °C, pH 7.0 and in the presence of 2–4 % (w/v) NaCl. -Diaminopimelic acid was present in the cell-wall peptidoglycan. Strain YIM M13235 exhibited a menaquinone system with MK-7, and the major polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, four unknown phospholipids and one unknown glycolipid. The major fatty acids (>5 %) were iso-C, anteiso-C, anteiso-C, iso-Cω10 and summed feature 4 (anteiso-C and/or iso-C). The genomic DNA G+C content was 42.1 mol%. The DNA–DNA relatedness values between strain YIM M13235 and its close relatives (16S rRNA gene sequence similarities >97 %) including DSM 8723, DSM 8719 and JSM 099021 were 41 %, 44 % and 44 %, respectively. On the basis of genotypic, phenotypic and DNA–DNA relatedness data, it is apparent that strain YIM M13235 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is YIM M13235 ( = DSM 25879 = KCTC 33044).

Funding
This study was supported by the:
  • National Basic Research Program of China (Award 2010CB833801)
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2014-06-01
2024-03-19
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References

  1. Ash C., Farrow J. A. E., Wallbanks S., Collins M. D. ( 1991 ). Phylogenetic heterogeneity of the genus Bacillus revealed by comparative analysis of small-subunit ribosomal RNA sequences. . Lett Appl Microbiol 13, 202206. [View Article]
    [Google Scholar]
  2. Chen Y. G., Hu S. P., Tang S. K., He J. W., Xiao J. Q., Zhu H. Y., Li W. J. ( 2011 ). Bacillus zhanjiangensis sp. nov., isolated from an oyster in South China Sea. . Antonie van Leeuwenhoek 99, 473480. [View Article] [PubMed]
    [Google Scholar]
  3. Cohen-Bazire G., Sistrom W. R., Stanier R. Y. ( 1957 ). Kinetic studies of pigment synthesis by non-sulfur purple bacteria. . J Cell Comp Physiol 49, 2568. [View Article] [PubMed]
    [Google Scholar]
  4. Collins M. D., Jones D. ( 1980 ). Lipids in the classification and identification of coryneform bacteria containing peptidoglycans based on 2, 4-diaminobutyric acid. . J Appl Bacteriol 48, 459470. [View Article]
    [Google Scholar]
  5. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. ( 1977 ). Distribution of menaquinones in actinomycetes and corynebacteria. . J Gen Microbiol 100, 221230. [View Article] [PubMed]
    [Google Scholar]
  6. Cowan S. T., Steel K. J. ( 1965 ). Manual for the Identification of Medical Bacteria. London:: Cambridge University Press;.
    [Google Scholar]
  7. 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]
  8. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368376. [View Article] [PubMed]
    [Google Scholar]
  9. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783791. [View Article]
    [Google Scholar]
  10. Fitch W. M. ( 1971 ). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20, 406416. [View Article]
    [Google Scholar]
  11. Gordon R. E., Barnett D. A., Handerhan J. E., Pang C. H.-N. ( 1974 ). Nocardia coeliaca, Nocardia autotrophica and the nocardin strain. . Int J Syst Bacteriol 24, 5463. [View Article]
    [Google Scholar]
  12. Jiang Y., Tang S. K., Wiese J., Xu L. H., Imhoff J. F., Jiang C. L. ( 2007 ). Streptomyces hainanensis sp. nov., a novel member of the genus Streptomyces . . Int J Syst Evol Microbiol 57, 26942698. [View Article] [PubMed]
    [Google Scholar]
  13. 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]
  14. Kimura M. ( 1980 ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16, 111120. [View Article] [PubMed]
    [Google Scholar]
  15. Li W. J., Xu P., Schumann P., Zhang Y. Q., Pukall R., Xu L. H., Stackebrandt E., Jiang C. L. ( 2007 ). Georgenia ruanii sp. nov., a novel actinobacterium isolated from forest soil in Yunnan (China), and emended description of the genus Georgenia . . Int J Syst Evol Microbiol 57, 14241428. [View Article] [PubMed]
    [Google Scholar]
  16. Marmur J. ( 1961 ). A procedure for the isolation of deoxyribonucleic acid from microorganisms. . J Mol Biol 3, 208218. [View Article]
    [Google Scholar]
  17. Minnikin D. E., Collins M. D., Goodfellow M. ( 1979 ). Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. . J Appl Bacteriol 47, 8795. [View Article]
    [Google Scholar]
  18. Nielsen P., Fritze D., Priest F. G. ( 1995 ). Phenetic diversity of alkaliphilic Bacillus strains: proposal for nine new species. . Microbiology 141, 17451761. [View Article]
    [Google Scholar]
  19. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  20. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  21. 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, 150156. [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. [View Article]
    [Google Scholar]
  23. Stackebrandt E., Liesack W. ( 1993 ). Nucleic acids and classification. . In Handbook of New Bacterial Systematics, pp. 152189. Edited by Goodfellow M., O’Donnell A. G. . London:: Academic Press;.
    [Google Scholar]
  24. Staneck J. L., Roberts G. D. ( 1974 ). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. . Appl Microbiol 28, 226231.[PubMed]
    [Google Scholar]
  25. Tamaoka J., Katayama-Fujimura Y., Kuraishi H. ( 1983 ). Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. . J Appl Bacteriol 54, 3136. [View Article]
    [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, 27312739. [View Article] [PubMed]
    [Google Scholar]
  27. Turnbull P. C. B. ( 1996 ). Bacillus . . In: Barron's Medical Microbiology ( Baron S. et al. , eds.) (, 4th ed..). Univ of Texas Medical Branch;. ISBN 978-0-9631172-1-2.
    [Google Scholar]
  28. Van Ert M., Staley J. T. ( 1971 ). Gas-vacuolated strains of Microcyclus aquaticus . . J Bacteriol 108, 236240.[PubMed]
    [Google Scholar]
  29. Ventosa A., Nieto J. J., Oren A. ( 1998 ). Biology of moderately halophilic aerobic bacteria. . Microbiol Mol Biol Rev 62, 504544.[PubMed]
    [Google Scholar]
  30. 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. [View Article]
    [Google Scholar]
  31. 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, 11491153. [View Article] [PubMed]
    [Google Scholar]
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