1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 64, Issue Pt_3

sp. nov., isolated from soil of a ginseng field Free

Abstract

A Gram-staining-negative, strictly aerobic, motile (by gliding), non-spore-forming and rod-shaped bacterial strain, designated THG-DT86, was isolated from soil of a ginseng field of Pocheon province in the Republic of Korea and its taxonomic position was investigated by a polyphasic approach. Growth occurred at 10–35 °C, at pH 6.5–8.5 and with 0–1.5 % (w/v) NaCl on trypticase soy agar. Flexirubin-type pigments were found to be present. On the basis of 16S rRNA gene sequence similarity, strain THG-DT86 was shown to belong to the genus and was related to PTJT-5 (95.3 %). The G+C content of the genomic DNA was 50.1 mol%. The only isoprenoid quinone detected in strain THG-DT86 was menaquinone-7 (MK-7) and the only polyamine was homospermidine. The predominant fatty acids were iso-C, iso-C 3-OH, C, iso-C G and iso-C, and the major polar lipids were phosphatidylethanolamine, an unidentified aminophosphoglycolipid and an unidentified aminophospholipid. Phenotypic data and phylogenetic inference supported the affiliation of strain THG-DT86 to the genus , and a number of biochemical tests differentiated strain THG-DT86 from the recognized species of the genus . Therefore, the novel isolate represents a novel species, for which the name sp. nov. is proposed, with THG-DT86 as the type strain ( = KACC 17171 = JCM 18823).

  • Published Online:
Funding
This study was supported by the:
  • Ministry for Food, Agriculture, Forestry and Fisheries, Republic of Korea (Award 810006-03-1-CG100)
© 2014 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.059790-0
2014-03-01
2024-04-26
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/3/1018.html?itemId=/content/journal/ijsem/10.1099/ijs.0.059790-0&mimeType=html&fmt=ahah

References

  1. Bernardet J.-F., Nakagawa Y., Holmes B. Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes ( 2002 ). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. . Int J Syst Evol Microbiol 52, 1049–1070. [View Article] [PubMed]
    [Google Scholar]
  2. Busse H.-J., Bunka S., Hensel A., Lubitz W. ( 1997 ). Discrimination of members of the family Pasteurellaceae based on polyamine patterns. . Int J Syst Bacteriol 47, 698–708. [View Article]
    [Google Scholar]
  3. Busse H.-J., Kämpfer P., Denner E. B. M. ( 1999 ). Chemotaxonomic characterisation of Sphingomonas . . J Ind Microbiol Biotechnol 23, 242–251. [View Article] [PubMed]
    [Google Scholar]
  4. Chung E. J., Park T. S., Jeon C. O., Chung Y. R. ( 2012 ). Chitinophaga oryziterrae sp. nov., isolated from the rhizosphere soil of rice (Oryza sativa L.). . Int J Syst Evol Microbiol 62, 3030–3035. [View Article] [PubMed]
    [Google Scholar]
  5. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368–376. [View Article] [PubMed]
    [Google Scholar]
  6. Felsenstein J. ( 1985 ). Confidence limit on phylogenies: an approach using the bootstrap. . Evolution 39, 783–791. [View Article]
    [Google Scholar]
  7. Fitch W. M. ( 1971 ). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20, 406–416. [View Article]
    [Google Scholar]
  8. 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]
  9. 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 detection. . J Gen Appl Microbiol 42, 457–469. [View Article]
    [Google Scholar]
  10. Kämpfer P., Young C. C., Sridhar K. R., Arun A. B., Lai W. A., Shen F. T., Rekha P. D. ( 2006 ). Transfer of [Flexibacter] sancti, [Flexibacter] filiformis, [Flexibacter] japonensis and [Cytophaga] arvensicola to the genus Chitinophaga and description of Chitinophaga skermanii sp. nov.. Int J Syst Evol Microbiol 56, 2223–2228. [View Article] [PubMed]
    [Google Scholar]
  11. 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. [View Article] [PubMed]
    [Google Scholar]
  12. Kimura M. ( 1983 ). The Neutral Theory of Molecular Evolution. Cambridge:: Cambridge University Press;. [View Article]
    [Google Scholar]
  13. Lee H. G., An D. S., Im W. T., Liu Q. M., Na J. R., Cho D. H., Jin C. W., Lee S. T., Yang D. C. ( 2007 ). Chitinophaga ginsengisegetis sp. nov. and Chitinophaga ginsengisoli sp. nov., isolated from soil of a ginseng field in South Korea. . Int J Syst Evol Microbiol 57, 1396–1401. [View Article] [PubMed]
    [Google Scholar]
  14. 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. [View Article]
    [Google Scholar]
  15. Minnikin D. E., Patel P. V., Alshamaony L., Goodfellow M. ( 1977 ). Polar lipid composition in the classification of Nocardia and related bacteria. . Int J Syst Bacteriol 27, 104–117. [View Article]
    [Google Scholar]
  16. Qu J. H., Yuan H. L., Yang J. S., Li H. F., Chen N. ( 2009 ). Lacibacter cauensis gen. nov., sp. nov., a novel member of the phylum Bacteroidetes isolated from sediment of a eutrophic lake. . Int J Syst Evol Microbiol 59, 1153–1157. [View Article] [PubMed]
    [Google Scholar]
  17. Reichenbach H. ( 1992 ). The order Cytophagales . . In The Prokaryotes, a Handbook on the Biology of Bacteria: Ecophysiology, Isolation, Identification, Applications, , 2nd edn., vol. 4, pp. 3631–3675. Edited by Balows A., Trüper H. G., Dworkin M., Harder W., Schleifer K. H. . New York:: Springer;.
     [Google Scholar]
  18. 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]
  19. Sasser M. ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE:: MIDI Inc;.
     [Google Scholar]
  20. Schmidt K., Connor A., Britton G. ( 1994 ). Analysis of pigments: carotenoids and related polyenes. . In Chemical Methods in Prokaryotic Systematics, pp. 403–461. Edited by Goodfellow M., O’Donnell A. G. . Chichester:: Wiley;.
     [Google Scholar]
  21. Shiratori H., Tagami Y., Morishita T., Kamihara Y., Beppu T., Ueda K. ( 2009 ). Filimonas lacunae gen. nov., sp. nov., a member of the phylum Bacteroidetes isolated from fresh water. . Int J Syst Evol Microbiol 59, 1137–1142. [View Article] [PubMed]
    [Google Scholar]
  22. Taibi G., Schiavo M. R., Gueli M. C., Calanni Rindina P., Muratore R., Nicotra C. M. ( 2000 ). Rapid and simultaneous high-performance liquid chromatography assay of polyamines and monoacetylpolyamines in biological specimens. . J Chromatogr B Biomed Sci Appl 745, 431–437. [View Article] [PubMed]
    [Google Scholar]
  23. 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, 2731–2739. [View Article] [PubMed]
    [Google Scholar]
  24. 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. [View Article] [PubMed]
    [Google Scholar]
  25. 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]
  26. Weon H. Y., Yoo S. H., Kim Y. J., Son J. A., Kim B. Y., Kwon S. W., Koo B. S. ( 2009 ). Chitinophaga niabensis sp. nov. and Chitinophaga niastensis sp. nov., isolated from soil. . Int J Syst Evol Microbiol 59, 1267–1271. [View Article] [PubMed]
    [Google Scholar]
  27. Weon H. Y., Kwon S. W., Son J. A., Kim S. J., Kim Y. S., Kim B. Y., Ka J. O. ( 2010 ). Adhaeribacter aerophilus sp. nov., Adhaeribacter aerolatus sp. nov. and Segetibacter aerophilus sp. nov., isolated from air samples. . Int J Syst Evol Microbiol 60, 2424–2429. [View Article] [PubMed]
    [Google Scholar]
  28. Zhang L., Wang Y., Wei L., Wang Y., Shen X., Li S. ( 2013 ). Taibaiella smilacinae gen. nov., sp. nov., an endophytic member of the family Chitinophagaceae isolated from the stem of Smilacina japonica, and emended description of Flavihumibacter petaseus . . Int J Syst Evol Microbiol 63, 3769–3776. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.059790-0
Loading
Taibaiella koreensis sp. nov., isolated from soil of a ginseng field
Int J Syst Evol Microbiol 64, 1018 (2014); https://doi.org/10.1099/ijs.0.059790-0
/content/journal/ijsem/10.1099/ijs.0.059790-0
/content/journal/ijsem/10.1099/ijs.0.059790-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited Most Cited RSS feed

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