1887

Abstract

A Gram-staining-positive, endospore-forming and rod-shaped bacterial strain, designated KUDC0114, was isolated from rhizospheric soil of from Dongdo Island, one of the largest of the Dokdo Islands, South Korea. The strain displayed optimal growth at 37 °C, pH 8.5 in the absence of NaCl. Based on phylogenetic analysis of 16S rRNA gene sequences, strain KUDC0114 represented a member of the genus and was most closely related to BCRC 17757 (98.46 %). The cell-wall peptidoglycan was A1γ type, and the predominant quinone was menaquinone-7 (MK-7). The major cellular fatty acids were anteiso-C and C. The DNA–DNA hybridization of strain KUDC0114 with nine other strains indicated less than 23 % relatedness, and its DNA G+C content was 44.30 mol%. Based on genomic, phenotypic and phylogenetic analyses, KUDC0114 should be classified as representing novel species within the genus . The name sp. nov. is proposed. The type strain is KUDC0114 ( = DSM27607 = KCTC33221).

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2014-08-01
2019-10-23
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References

  1. Ash C., Priest F. G., Collins M. D.. ( 1993;). Molecular identification of rRNA group 3 bacilli (Ash, Farrow, Wallbanks and Collins) using a PCR probe test. Proposal for the creation of a new genus Paenibacillus. . Antonie van Leeuwenhoek 64:, 253–260. [CrossRef][PubMed]
    [Google Scholar]
  2. Baik K. S., Lim C. H., Choe H. N., Kim E. M., Seong C. N.. ( 2011;). Paenibacillus rigui sp. nov., isolated from a freshwater wetland. . Int J Syst Evol Microbiol 61:, 529–534. [CrossRef][PubMed]
    [Google Scholar]
  3. Berge O., Guinebretière M. H., Achouak W., Normand P., Heulin T.. ( 2002;). Paenibacillus graminis sp. nov. and Paenibacillus odorifer sp. nov., isolated from plant roots, soil and food. . Int J Syst Evol Microbiol 52:, 607–616.[PubMed]
    [Google Scholar]
  4. Cheong H., Park S. Y., Ryu C. M., Kim J. F., Park S. H., Park C. S.. ( 2005;). Diversity of root-associated Paenibacillus spp. in winter crops from the southern part of Korea. . J Microbiol Biotechnol 15:, 1286–1298.
    [Google Scholar]
  5. 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]
  6. Cowan S. T., Steel K. J.. ( 1965;). Manual for the Identification of Medical Bacteria. London:: Cambridge University Press;.
    [Google Scholar]
  7. Cultural Heritage Administration of Korea ( 2009;) Natural Heritage of Korea, Dokdo, , 1st edn., Flora of Dokdo. pp. 138–164. Edited by Park J. H., Yang J. Y., Lee D. H. ., Daegu:: Kyungpook National University Press;.
    [Google Scholar]
  8. 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 Evol Microbiol 39:, 224–229.
    [Google Scholar]
  9. Felsenstein J.. ( 2007;). phylip (phylogeny inference package), version 3.67. Distributed by the author. . Department of Genome Sciences and Department of Biology, University of Washington;, Seattle, USA:.
  10. Glaeser S. P., Falsen E., Busse H. J., Kämpfer P.. ( 2013;). Paenibacillus vulneris sp. nov., isolated from a necrotic wound. . Int J Syst Evol Microbiol 63:, 777–782. [CrossRef][PubMed]
    [Google Scholar]
  11. Hahm M. S., Sumayo M., Hwang Y. J., Jeon S. A., Park S. J., Lee J. Y., Ahn J. H., Kim B. S., Ryu C. M., Ghim S. Y.. ( 2012;). Biological control and plant growth promoting capacity of rhizobacteria on pepper under greenhouse and field conditions. . J Microbiol 50:, 380–385. [CrossRef][PubMed]
    [Google Scholar]
  12. 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]
  13. Ham M. S., Park Y. M., Sung H. R., Sumayo M., Ryu C. M., Park S. H., Ghim S.-Y.. ( 2009;). Characterization of rhizobacteria isolated from family Solanaceae plants in Dokdo Island. . Kor J Microbiol Biotechnol. 37:, 110–117.
    [Google Scholar]
  14. Jeon S. A., Sung H. R., Park Y. M., Park J. H., Ghim S. Y.. ( 2009;). Analysis of endospore-forming bacteria of nitrogen-fixing bacteria community isolated from plants rhizosphere in Dokdo island. . Kor J Microbiol Biotechnol 37:, 189–196.
    [Google Scholar]
  15. Kluge A. G., Farris J. S.. ( 1969;). Quantitative phyletics and the evolution of anurans. . Syst Biol 18:, 1–32. [CrossRef]
    [Google Scholar]
  16. Komagata K., Suzuki K. L.. ( 1987;). Lipid and cell-wall analysis in bacterial systematics. . Methods Microbiol 19:, 161–207. [CrossRef]
    [Google Scholar]
  17. Logan N. A., Berge O., Bishop A. H., Busse H. J., De Vos P., Fritze D., Heyndrickx M., Kämpfer P., Rabinovitch L.. & other authors ( 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]
  18. Ma Y., Xia Z., Liu X., Chen S.. ( 2007;). Paenibacillus sabinae sp. nov., a nitrogen-fixing species isolated from the rhizosphere soils of shrubs. . Int J Syst Evol Microbiol 57:, 6–11. [CrossRef][PubMed]
    [Google Scholar]
  19. 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]
  20. Rivas R., Mateos P. F., Martínez-Molina E., Velázquez E.. ( 2005a;). Paenibacillus xylanilyticus sp. nov., an airborne xylanolytic bacterium. . Int J Syst Evol Microbiol 55:, 405–408. [CrossRef][PubMed]
    [Google Scholar]
  21. Rivas R., Gutiérrez C., Abril A., Mateos P. F., Martínez-Molina E., Ventosa A., Velázquez E.. ( 2005b;). Paenibacillus rhizosphaerae sp. nov., isolated from the rhizosphere of Cicer arietinum. . Int J Syst Evol Microbiol 55:, 1305–1309. [CrossRef][PubMed]
    [Google Scholar]
  22. Roux V., Raoult D.. ( 2004;). Paenibacillus massiliensis sp. nov., Paenibacillus sanguinis sp. nov. and Paenibacillus timonensis sp. nov., isolated from blood cultures. . Int J Syst Evol Microbiol 54:, 1049–1054. [CrossRef][PubMed]
    [Google Scholar]
  23. Saha P., Mondal A. K., Mayilraj S., Krishnamurthi S., Bhattacharya A., Chakrabarti T.. ( 2005;). Paenibacillus assamensis sp. nov., a novel bacterium isolated from a warm spring in Assam, India. . Int J Syst Evol Microbiol 55:, 2577–2581. [CrossRef][PubMed]
    [Google Scholar]
  24. 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]
  25. Sambrook J., Russell D. W.. ( 2001;). Molecular Cloning: a Laboratory Manual, , 3rd edn.. New York:: Cold Spring Harbor Laboratory;.
    [Google Scholar]
  26. Sasser M.. ( 1990;). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE:: MIDI Inc;.
    [Google Scholar]
  27. Schaeffer A. B., Fulton M. D.. ( 1933;). A Simplified method of staining endospores. . Science 77:, 194. [CrossRef][PubMed]
    [Google Scholar]
  28. Scheldeman P., Goossens K., Rodriguez-Diaz M., Pil A., Goris J., Herman L., De Vos P., Logan N. A., Heyndrickx M.. ( 2004;). Paenibacillus lactis sp. nov., isolated from raw and heat-treated milk. . Int J Syst Evol Microbiol 54:, 885–891. [CrossRef][PubMed]
    [Google Scholar]
  29. Schleifer K. H., Kandler O.. ( 1972;). Peptidoglycan types of bacterial cell walls and their taxonomic implications. . Bacteriol Rev 36:, 407–477.[PubMed]
    [Google Scholar]
  30. Son J. S., Sumayo M., Kang H. U., Kim B. S., Kwon D. K., Ghim S. Y.. ( 2012;). Induced systemic resistance against gray leaf spot disease in pepper by Enterobacter species isolated from family Gramineae plants in Dok-do. . Kor J Microbiol. Biotechnol 40:, 135–143. [CrossRef]
    [Google Scholar]
  31. Son J. S., Sumayo M., Hwang Y. J., Kim B. S., Ghim S. Y.. ( 2014;). Screening of plant growth-promoting rhizobacteria as elicitor of systemic resistance against gray leaf spot disease in pepper. . Appl Soil Ecol 73:, 1–8. [CrossRef]
    [Google Scholar]
  32. Sung H. R., Yoon J. H., Ghim S. Y.. ( 2012;). Shewanella dokdonensis sp. nov., isolated from seawater. . Int J Syst Evol Microbiol 62:, 1636–1643. [CrossRef][PubMed]
    [Google Scholar]
  33. Tamaoka J., Komagata K.. ( 1984;). Determination of DNA bas composition by reversed-phase high-performance liquid chromatography. . FEMS Microbiol Lett 25:, 125–128. [CrossRef]
    [Google Scholar]
  34. 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]
  35. Timmusk S., Wagner E. G.. ( 1999;). The plant-growth-promoting rhizobacterium Paenibacillus polymyxa induces changes in Arabidopsis thaliana gene expression: a possible connection between biotic and abiotic stress responses. . Mol Plant Microbe Interact 12:, 951–959. [CrossRef][PubMed]
    [Google Scholar]
  36. Wang L. Y., Li J., Li Q. X., Chen S. F.. ( 2013;). Paenibacillus beijingensis sp. nov., a nitrogen-fixing species isolated from wheat rhizosphere soil. . Antonie van Leeuwenhoek 104:, 675–683. [CrossRef][PubMed]
    [Google Scholar]
  37. Yoon J. H., Lee S. T., Park Y. H.. ( 1998;). Inter- and intraspecific phylogenetic analysis of the genus Nocardioides and related taxa based on 16S rDNA sequences. . Int J Syst Bacteriol 48:, 187–194. [CrossRef][PubMed]
    [Google Scholar]
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