1887

Abstract

A novel bacterial strain, designated THG-RS2O, was isolated from fallow-land soil previously cultivated with in Yongin, South Korea. Cells were Gram-stain-negative, aerobic, non-motile rods, catalase- and oxidase-positive. Strain THG-RS2O grew optimally at 25–37 °C, at pH 7.0 and in the absence of NaCl. 16S rRNA gene sequence analysis demonstrated that strain THG-RS2O shows highest sequence similarity with KACC 17471 followed by KACC 12505, KACC 12599, KACC 14940 and KCTC 32001. Levels of DNA–DNA relatedness between strain THG-RS2O and the closest phylogenetic neighbours were below 55.0 % and the DNA G+C content of strain THG-RS2O was 63.2 mol%. Major fatty acids were C, cyclo-C and summed feature 3 (Cω6 and/or Cω7). The major respiratory quinone was identified as ubiquonone-8 and predominant polar lipids were determined to be diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol. Characterization by 16S rRNA gene sequence analysis, DNA–DNA hybridization, ubiquinone, polar lipid, fatty acid composition, and physiological and biochemical parameters revealed that strain THG-RS2O represents a novel species of the genus . Hence, the present study describes a novel species for which the name sp. nov. is proposed. The type strain is THG-RS2O ( = KCTC 42609 = CCTCC AB 2015115).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.000477
2015-10-01
2019-12-06
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/10/3690.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.000477&mimeType=html&fmt=ahah

References

  1. Christensen W.B.. ( 1946;). Urea decomposition as a means of differentiating Proteus and paracolon cultures from each other and from Salmonella and Shigella types. J Bacteriol 52: 461–466 [PubMed].
    [Google Scholar]
  2. Du Y., Yu X., Wang G.. ( 2012;). Massilia tieshanensis sp. nov., isolated from mining soil. Int J Syst Evol Microbiol 62: 2356–2362 [CrossRef] [PubMed].
    [Google Scholar]
  3. 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 [CrossRef].
    [Google Scholar]
  4. Felsenstein J.. ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17: 368–376 [CrossRef] [PubMed].
    [Google Scholar]
  5. Felsenstein J.. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783–791 [CrossRef].
    [Google Scholar]
  6. Fitch W.M.. ( 1971;). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20: 406–416 [CrossRef].
    [Google Scholar]
  7. Gallego V., Sánchez-Porro C., García M.T., Ventosa A.. ( 2006;). Massilia aurea sp. nov., isolated from drinking water. Int J Syst Evol Microbiol 56: 2449–2453 [CrossRef] [PubMed].
    [Google Scholar]
  8. Gillis M., De Ley J., De Cleene M.. ( 1970;). The determination of molecular weight of bacterial genome DNA from renaturation rates. Eur J Biochem 12: 143–153 [CrossRef] [PubMed].
    [Google Scholar]
  9. Gomori G.. ( 1955;). Preparation of buffers for use in enzyme studies. Methods Enzymol 1: 138–146 [CrossRef].
    [Google Scholar]
  10. 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]
  11. Hiraishi A., Ueda Y., Ishihara J., Mori T.. ( 1996;). Comparative lipoquinone analysis of influent sewage and activated sludge by high performance liquid chromatography and photodiode array 316 detection. J Gen Appl Microbiol 42: 457–469 [CrossRef].
    [Google Scholar]
  12. Kämpfer P., Falsen E., Busse H.J.. ( 2008;). Naxibacter varians sp. nov. and Naxibacter haematophilus sp. nov., and emended description of the genus Naxibacter. Int J Syst Evol Microbiol 58: 1680–1684 [CrossRef] [PubMed].
    [Google Scholar]
  13. Kämpfer P., Lodders N., Martin K., Falsen E.. ( 2011;). Revision of the genus Massilia La Scola et al. 2000, with an emended description of the genus and inclusion of all species of the genus Naxibacter as new combinations, and proposal of Massilia consociata sp. nov. Int J Syst Evol Microbiol 61: 1528–1533 [CrossRef] [PubMed].
    [Google Scholar]
  14. Kämpfer P., Lodders N., Martin K., Falsen E.. ( 2012;). Massilia oculi sp. nov., isolated from a human clinical specimen. Int J Syst Evol Microbiol 62: 364–369 [CrossRef] [PubMed].
    [Google Scholar]
  15. Kim J.. ( 2014;). Massilia kyonggiensis sp. nov., isolated from forest soil in Korea. J Microbiol 52: 378–383 [CrossRef] [PubMed].
    [Google Scholar]
  16. 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: 716–721 [CrossRef] [PubMed].
    [Google Scholar]
  17. Kimura M.. [CrossRef] ( 1983;). The Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press;.
    [Google Scholar]
  18. Kong B.H., Li Y.H., Liu M., Liu Y., Li C.L., Liu L., Yang Z.W., Yu R.. ( 2013;). Massilia namucuonensis sp. nov., isolated from a soil sample. Int J Syst Evol Microbiol 63: 352–357 [CrossRef] [PubMed].
    [Google Scholar]
  19. La Scola B., Birtles R.J., Mallet M.N., Raoult D.. ( 1998;). Massilia timonae gen. nov., sp. nov., isolated from blood of an immunocompromised patient with cerebellar lesions. J Clin Microbiol 36: 2847–2852 [PubMed].
    [Google Scholar]
  20. McConaughy B.L., Laird C.D., McCarthy B.J.. ( 1969;). Nucleic acid reassociation in formamide. Biochemistry 8: 3289–3295 [CrossRef] [PubMed].
    [Google Scholar]
  21. 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]
  22. Minnikin D.E., O'Donnell A.G., Goodfellow M., Alderson G., Athalye M., Schaal A., Parlett J.H.. ( 1984;). An intergrated procedure for the extraction of bacterial isoprenoid quinines and polar lipids. J Microbiol Methods 2: 233–241 [CrossRef].
    [Google Scholar]
  23. Moore D.D., Dowhan D.. ( 1995;). Preparation and analysis of DNA. . In Current Protocols in Molecular Biology, pp. 2–11. Edited by Ausubel F. M., Brent R., Kingston R. E., Moore D. D., Seidman J. G., Smith J. A., Struhl K.. New York: Wiley;.
    [Google Scholar]
  24. Orthová I., Kämpfer P., Glaeser S.P., Kaden R., Busse H.J.. ( 2015;). Massilia norwichensis sp. nov., isolated from an air sample. Int J Syst Evol Microbiol 65: 56–64 [CrossRef] [PubMed].
    [Google Scholar]
  25. Pikovskaya R.I.. ( 1948;). [Mobilization of phosphorus in soil in connection with vital activity of some microbial species]. Microbiologiia 17: 362–370 (in Russian).
    [Google Scholar]
  26. Reichenbach H.. ( 1992;). The order Cytophagales. . In The Prokaryotes, a Handbook on the Biology of Bacteria: Ecophysiology, Isolation, Identification, Applications4, 2nd edn.., pp. 3631–3675. Edited by Balows A., Trüper H. G., Dworkin M., Harder W., Schleifer K. H.. New York: Springer;.
    [Google Scholar]
  27. 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]
  28. Sasser M.. ( 1990;). Identification of bacteria by gas chromatography of cellular fatty acids MIDI Technical Note 101 Newark, DE: MIDI Inc;.
    [Google Scholar]
  29. Schwyn B., Neilands J.B.. ( 1987;). Universal chemical assay for the detection and determination of siderophores. Anal Biochem 160: 47–56 [CrossRef] [PubMed].
    [Google Scholar]
  30. Shen L., Liu Y., Gu Z., Xu B., Wang N., Jiao N., Liu H., Zhou Y.. ( 2015;). [CrossRef] [Epub ahead of print]. [CrossRef] [PubMed] Massilia eurypsychrophila sp. nov. a facultative psychrophilic bacteria isolated from ice core. Int J Syst Evol Microbiol [Epub ahead of print].
    [Google Scholar]
  31. Stabili L., Gravili C., Tredici S.M., Piraino S., Talà A., Boero F., Alifano P.. ( 2008;). Epibiotic Vibrio luminous bacteria isolated from some hydrozoa and bryozoa species. Microb Ecol 56: 625–636 [CrossRef] [PubMed].
    [Google Scholar]
  32. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S.. ( 2013;). mega6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30: 2725–2729 [CrossRef] [PubMed].
    [Google Scholar]
  33. 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]
  34. Wang J., Zhang J., Pang H., Zhang Y., Li Y., Fan J.. ( 2012;). Massilia flava sp. nov., isolated from soil. Int J Syst Evol Microbiol 62: 580–585 [CrossRef] [PubMed].
    [Google Scholar]
  35. 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: 463–464 [CrossRef].
    [Google Scholar]
  36. Weisburg W.G., Barns S.M., Pelletier D.A., Lane D.J.. ( 1991;). 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173: 697–703 [PubMed].
    [Google Scholar]
  37. Weon H.Y., Kim B.Y., Son J.A., Jang H.B., Hong S.K., Go S.J., Kwon S.W.. ( 2008;). Massilia aerilata sp. nov., isolated from an air sample. Int J Syst Evol Microbiol 58: 1422–1425 [CrossRef] [PubMed].
    [Google Scholar]
  38. Weon H.Y., Kim B.Y., Hong S.B., Jeon Y.A., Koo B.S., Kwon S.W., Stackebrandt E.. ( 2009;). Massilia niabensis sp. nov. and Massilia niastensis sp. nov., isolated from air samples. Int J Syst Evol Microbiol 59: 1656–1660 [CrossRef] [PubMed].
    [Google Scholar]
  39. Weon H.Y., Yoo S.-H., Kim S.J., Kim Y.S., Anandham R., Kwon S.W.. ( 2010;). Massilia jejuensis sp. nov. and Naxibacter suwonensis sp. nov., isolated from air samples. Int J Syst Evol Microbiol 60: 1938–1943 [CrossRef] [PubMed].
    [Google Scholar]
  40. Zhang Y.Q., Li W.J., Zhang K.Y., Tian X.P., Jiang Y., Xu L.H., Jiang C.L., Lai R.. ( 2006;). Massilia dura sp. nov., Massilia albidiflava sp. nov., Massilia plicata sp. nov. and Massilia lutea sp. nov., isolated from soils in China. Int J Syst Evol Microbiol 56: 459–463 [CrossRef] [PubMed].
    [Google Scholar]
  41. Zul D., Wanner G., Overmann J.. ( 2008;). Massilia brevitalea sp. nov., a novel betaproteobacterium isolated from lysimeter soil. Int J Syst Evol Microbiol 58: 1245–1251 [CrossRef] [PubMed].
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.000477
Loading
/content/journal/ijsem/10.1099/ijsem.0.000477
Loading

Data & Media loading...

Supplements

Supplementary Data



PDF

Most Cited This Month

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error