1887

Abstract

A Gram-stain-negative, smooth, bright yellow-pigmented, aerobic, catalase- and oxidase-positive and rod-shaped bacterial strain was isolated from rhizosphere of L. (Mugunghwa flower) located in Kyung Hee University, Yongin, Gyeonggi, South Korea. Cells were dimorphic, non-motile or non-stalked, and motile by means of peritrichous flagellum. The strain, named THG-AG3.4, grew at 15–35 °C, at pH 6.5–9.0 and in the presence of 0–1.5 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain THG-AG3.4 was most closely related to ATCC 21756 (98.64 % similarity), CB51 (98.57 %) and ATCC 15253 (97.41 %). The DNA G+C content of strain THG-AG3.4 was 64.0 mol%. In DNA–DNA hybridization, the DNA–DNA relatedness between strain THG-AG3.4 and its closest phylogenetic neighbour was below 55.0 %. The predominant isoprenoid quinone detected in strain THG-AG3.4 was ubiquinone-10 (Q-10). The major polar lipids were found to be an unidentified lipid, two unidentified phosphoglycolipids, five unidentified glycolipids, eight unidentified aminolipids and phosphatidylglycerol. The major fatty acids were C, summed feature 3 (Cω and/or Cω) and summed feature 8 (C 7 and/or C 6). Thus, based on the report of the phenotypic, genotypic and phylogenetic characterization of strain THG-AG3.4, it has been concluded that the isolate represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is THG-AG3.4 (=KACC 18849=CCTCC AB 2016077).

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2017-09-01
2024-04-24
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References

  1. Henrici AT, Johnson DE. Studies of freshwater bacteria: II. Stalked bacteria, a new order of Schizomycetes. J Bacteriol 1935; 30:61–93[PubMed]
    [Google Scholar]
  2. Bowers LE, Weaver RH, Grula EA, Edwards OF. Studies on a strain of Caulobacter from water. I. Isolation and identification as Caulobacter vibrioides Henrici and Johnson with emended description. J Bacteriol 1954; 68:194–200[PubMed]
    [Google Scholar]
  3. Poindexter JS. Biological properties and classification of the Caulobacter group. Bacteriol Rev 1964; 28:231–295[PubMed]
    [Google Scholar]
  4. Abraham WR, Strömpl C, Meyer H, Lindholst S, Moore ER et al. Phylogeny and polyphasic taxonomy of Caulobacter species. Proposal of Maricaulis gen. nov. with Maricaulis maris (Poindexter) comb. nov. as the type species, and emended description of the genera Brevundimonas and Caulobacter. Int J Syst Bacteriol 1999; 49:1053–1073 [View Article][PubMed]
    [Google Scholar]
  5. Urakami T, Oyanagi H, Araki H, Suzuki K-I, Komagata K. Recharacterization and emended description of the genus Mycoplana and description of two new species, Mycoplana ramosa and Mycoplana segnis. Int J Syst Bacteriol 1990; 40:434–442 [View Article]
    [Google Scholar]
  6. Chen H, Jogler M, Rohde M, Klenk HP, Busse HJ et al. Reclassification and emended description of Caulobacter leidyi as Sphingomonas leidyi comb. nov., and emendation of the genus Sphingomonas. Int J Syst Evol Microbiol 2012; 62:2835–2843 [View Article][PubMed]
    [Google Scholar]
  7. Poindexter JS, Lewis RF. Recommendations for revision of the taxonomic treatment of stalked bacteria. Int J Syst Bacteriol 1966; 16:377–382 [View Article]
    [Google Scholar]
  8. Abraham WR, Macedo AJ, Lünsdorf H, Fischer R, Pawelczyk S et al. Phylogeny by a polyphasic approach of the order Caulobacterales, proposal of Caulobacter mirabilis sp. nov., Phenylobacterium haematophilum sp. nov. and Phenylobacterium conjunctum sp. nov., and emendation of the genus Phenylobacterium. Int J Syst Evol Microbiol 2008; 58:1939–1949 [View Article][PubMed]
    [Google Scholar]
  9. Liu QM, Ten LN, Im WT, Lee ST, Yoon MH. Caulobacter ginsengisoli sp. nov., a novel stalked bacterium isolated from ginseng cultivating soil. J Microbiol Biotechnol 2010; 20:15–20[PubMed]
    [Google Scholar]
  10. Jin L, La HJ, Lee HG, Lee JJ, Lee S et al. Caulobacter profunda sp. nov., isolated from deep freshwater sediment. Int J Syst Evol Microbiol 2014; 64:762–767 [View Article][PubMed]
    [Google Scholar]
  11. Jin L, Lee HG, Kim HS, Ahn CY, Oh HM. Caulobacter daechungensis sp. nov., a stalked bacterium isolated from a eutrophic reservoir. Int J Syst Evol Microbiol 2013; 63:2559–2564 [View Article][PubMed]
    [Google Scholar]
  12. Sun LN, Yang ED, Wei JC, Tang XY, Cao YY et al. Caulobacter flavus sp. nov., a stalked bacterium isolated from rhizosphere soil. Int J Syst Evol Microbiol 2015; 65:4374–4380 [View Article][PubMed]
    [Google Scholar]
  13. Poindexter JS. Genus I. Caulobacter Henrici and Johnson 1935b, 83AL emend. Abraham, Strömpl, Meyer, Lindholst, Moore, Christ, Vancanneyt, Tindall, Bennasar, Smit and Tesar 1999, 1070. In Brenner DJ, Krieg NR, Staley JT, Garrity GM. (editors) Bergey’s Manual of Systematic Bacteriology, 2nd ed. vol. 2, Part C New York: Springer; 2005 pp. 287–303 [CrossRef]
    [Google Scholar]
  14. Staley JT. Prosthecomicrobium and Ancalomicrobium: new prosthecate freshwater bacteria. J Bacteriol 1968; 95:1921–1942[PubMed]
    [Google Scholar]
  15. Poindexter JS. Genus Caulobacter Henrici and Johnson 1935, 83AL. In Staley JT, Bryant MP, Pfennig N, Holt JG. (editors) Bergey’s Manual of Systematic Bacteriology vol. 3 Baltimore: Williams & Wilkins; 1989 pp. 1924–1939
    [Google Scholar]
  16. Poindexter JS. Oligotrophy. Fast and famine existence. In Alexander M. (editor) Microbial Ecology vol. 5 New York: Plenum Publishing Corp; 1981 pp. 63–89 [CrossRef]
    [Google Scholar]
  17. Hiergeist A, Reischl U, Gessner A. Priority Program 1656 Intestinal Microbiota Consortium/quality assessment participants Multicenter quality assessment of 16S ribosomal DNA-sequencing for microbiome analyses reveals high inter-center variability. Int J Med Microbiol 2016; 306:334–342 [View Article][PubMed]
    [Google Scholar]
  18. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012; 62:716–721 [View Article][PubMed]
    [Google Scholar]
  19. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997; 25:4876–4882 [View Article][PubMed]
    [Google Scholar]
  20. Hall TA. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Ser 1999; 41:95–98
    [Google Scholar]
  21. Kimura M. The Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press; 1983 [CrossRef]
    [Google Scholar]
  22. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425[PubMed]
    [Google Scholar]
  23. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011; 28:2731–2739 [View Article][PubMed]
    [Google Scholar]
  24. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article][PubMed]
    [Google Scholar]
  25. Fautz E, Reichenbach H. A simple test for flexirubin-type pigments. FEMS Microbiol Lett 1980; 8:87–91 [View Article]
    [Google Scholar]
  26. Moore DD, Dowhan D. Preparation and analysis of DNA. In Ausubel FW, Brent R, Kingston RE, Moore DD, Seidman JG et al. (editors) Current Protocols in Molecular Biology New York: Wiley; 1995 pp. 2–11
    [Google Scholar]
  27. Mesbah M, Premachandran U, Whitman WB. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 1989; 39:159–167 [View Article]
    [Google Scholar]
  28. Ezaki T, Hashimoto Y, Yabuuchi E. 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 1989; 39:224–229 [View Article]
    [Google Scholar]
  29. Gillis M, de Ley J, de Cleene M. The determination of molecular weight of bacterial genome DNA from renaturation rates. Eur J Biochem 1970; 12:143–153 [View Article][PubMed]
    [Google Scholar]
  30. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O et al. International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 1987; 37:463–464 [CrossRef]
    [Google Scholar]
  31. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI; 1990
    [Google Scholar]
  32. Minnikin DE, Patel PV, Alshamaony L, Goodfellow M. Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 1977; 27:104–117 [View Article]
    [Google Scholar]
  33. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2:233–241 [View Article]
    [Google Scholar]
  34. Hiraishi A, Ueda Y, Ishihara J, Mori T. Comparative lipoquinone analysis of influent sewage and activated sludge by high-performance liquid chromatography and photodiode array detection. J Gen Appl Microbiol 1996; 42:457–469 [View Article]
    [Google Scholar]
  35. Collins MD, Jones D. Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implication. Microbiol Rev 1981; 45:316–354[PubMed]
    [Google Scholar]
  36. Tamaoka J, Katayama-Fujiruma A, Kuraishi H. Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. J Appl Bacteriol 1983; 54:31–36 [View Article][PubMed]
    [Google Scholar]
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