1887

Abstract

A Gram-stain-negative, facultatively anaerobic, motile and rod-shaped bacterial strain, designated THG-DN8.8, was isolated from the rhizosphere of a wild strawberry plant, located on Gyeryong Mountain, Daejeon, Republic of Korea. According to 16S rRNA gene sequence comparisons, the isolate was identified as a member of the genus Flavobacterium and was related most closely to Flavobacterium banpakuense 15F3(97.7 % sequence similarity), Flavobacterium ginsenosidimutans THG-01(97.3 %), Flavobacterium ginsengiterrae DCY55(96.9 %) and Flavobacterium chungbukense CS100 (96.7 %). Catalase and oxidase tests were positive. Levels of DNA–DNA relatedness with its phylogenetically closest neighbours were below 40.0 %. The DNA G+C content was determined to be 39.1 mol%. Strain THG-DN8.8 also was found to be able to grow at 4–33 °C, with 0–2 % (w/v) NaCl and at pH 5.5–9.5. The major fatty acids were iso-C15 : 0, summed feature 3 (comprising C16 : 1 ω7c and/or C16 : 1 ω6c) and C16 : 0. Menaquinone-6 (MK-6) was the dominant respiratory quinone, and phosphatidylethanolamine and phosphatidyldiethanolamine were the main polar lipids. On the basis of the data presented, strain THG-DN8.8 represents a novel species, for which the name Flavobacterium tyrosinilyticum sp. nov. is proposed. The type strain is THG-DN8.8 (=KCTC 42726=CCTCC AB 2015295).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001104
2016-07-01
2019-10-15
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/66/7/2629.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001104&mimeType=html&fmt=ahah

References

  1. Bergey D. H. , Harrison F. C. , Breed R. S. , Hammer B. W. , Huntoon F. M. . ( 1923;). Genus II. Flavobacterium Gen. nov. . In Bergey’s Manual of Determinative Bacteriology,97 117. Baltimore, MD:: Williams & Wilkins;.
    [Google Scholar]
  2. Bernardet J. F. , Segers P. , Vancanneyt M. , Berthe F. , Kersters K. , Vandamme P. . ( 1996;). Cutting a gordian knot: Emended classifica-tion and description of the genus Flavobacterium, emended description of the family Flavobacteriaceae, and proposal of Flavobacterium hydatis nom. nov. (basonym, cytophaga aquatilis strohl and tait 1978). . Int J Syst Bacteriol 46: 128–148. [CrossRef]
    [Google Scholar]
  3. Collins M. D. , Jones D. . ( 1981;). Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implication. . Microbiol Rev 45: 316–354.[PubMed]
    [Google Scholar]
  4. Dong K. , Chen F. , Du Y. , Wang G. . ( 2013;). Flavobacterium enshiense sp. nov., isolated from soil, and emended descriptions of the genus Flavobacterium and Flavobacterium cauense, F lavobacterium saliperosum and Flavobacterium suncheonense . . Int J Syst Evol Microbiol 63: 886–892. [CrossRef] [PubMed]
    [Google Scholar]
  5. 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]
  6. Fautz E. , Reichenbach H. . ( 1980;). A simple test for flexirubin-type pigments. . FEMS Microbiol Lett 8: 87–91. [CrossRef]
    [Google Scholar]
  7. Felsenstein J. . ( 1985;). Confidence limit on phylogenies: An approach using the bootstrap. . Evolution Int J Org Evol 39: 783–791. [CrossRef]
    [Google Scholar]
  8. Fu Y. , Tang X. , Lai Q. , Zhang C. , Zhong H. , Li W. , Liu Y. , Chen L. , Sun F. et al. ( 2011;). Flavobacterium beibuense sp. nov., isolated from marine sediment. . Int J Syst Evol Microbiol 61: 205–209. [CrossRef]
    [Google Scholar]
  9. Hall T. A. . ( 1999;). Bioedit: A user-friendly biological sequence alignment editor and analysis program for windows 95/98/NT. . Nucl Acids Symp Ser 41: 95–98.
    [Google Scholar]
  10. 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. [CrossRef]
    [Google Scholar]
  11. Kacagan M. , Inan K. , Belduz A. O. , Canakci S. . ( 2013;). Flavobacterium anatoliense sp. nov., isolated from fresh water, and emended description of Flavobacterium ceti . . Int J Syst Evol Microbiol 63: 2075–2081. [CrossRef] [PubMed]
    [Google Scholar]
  12. Kang J. Y. , Chun J. , Jahng K. Y. . ( 2013;). Flavobacterium aciduliphilum sp. nov., isolated from freshwater, and emended description of the genus Flavobacterium . . Int J Syst Evol Microbiol 63: 1633–1638. [CrossRef] [PubMed]
    [Google Scholar]
  13. Kim J.-J. , Jin H. M. , Lee H. J. , Jeon C. O. , Kanaya E. , Koga Y. , Takano K. , Kanaya S. . ( 2011a;). Flavobacterium banpakuense sp. nov., isolated from leaf-and-branch compost. . Int J Syst Evol Microbiol 61: 1595–1600. [CrossRef]
    [Google Scholar]
  14. Kim O. S. , Cho Y. J. , Lee K. , Yoon S. H. , Kim M. , Na H. , Park S. C. , Jeon Y. S. , Lee J. H. , Yi H. , Won S. , Chun J. . ( 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]
  15. Kim S.-R. , Kim Y.-J. , Nguyen N.-L. , Min J. W. , Jeon J. N. , Yang D. U. , Yang D.-C. . ( 2011b;). Flavobacterium ginsengiterrae sp. nov., isolated from a ginseng field. . J Gen Appl Microbiol 57: 341–346. [CrossRef]
    [Google Scholar]
  16. Kim Y. J. , Kim S. R. , Nguyen N. L. , Yang D. C. . ( 2013;). Flavobacterium ginsengisoli sp. nov., isolated from soil of a ginseng field. . Int J Syst Evol Microbiol 63: 4289–4293. [CrossRef] [PubMed]
    [Google Scholar]
  17. Kimura M. . ( 1983;). The Neutral Theory of Molecular Evolution, Cambridge:: Cambridge University Press;.[CrossRef]
    [Google Scholar]
  18. Kuo I. , Saw J. , Kapan D. D. , Christensen S. , Kaneshiro K. Y. , Donachie S. P. . ( 2013;). Flavobacterium akiainvivens sp. nov., from decaying wood of Wikstroemia oahuensis, Hawai'i, and emended description of the genus Flavobacterium . . Int J Syst Evol Microbiol 63: 3280–3286. [CrossRef] [PubMed]
    [Google Scholar]
  19. Kämpfer P. , Lodders N. , Martin K. , Avendaño-Herrera R. . ( 2012;). Flavobacterium chilense sp. nov. and flavobacterium araucananum sp. nov., isolated from farmed salmonid fish. . Int J Syst Evol Microbiol 62: 1402–1408. [CrossRef] [PubMed]
    [Google Scholar]
  20. Lee S. , Weon H. Y. , Han K. , Ahn T. Y. . ( 2012;). Flavobacterium dankookense sp. nov., isolated from a freshwater reservoir, and emended descriptions of Flavobacterium cheonanense, F. chungnamense, F. koreense and F. aquatile . . Int J Syst Evol Microbiol 62: 2378–2382. [CrossRef]
    [Google Scholar]
  21. Lim C. S. , Oh Y. S. , Lee J. K. , Park A. R. , Yoo J. S. , Rhee S. K. , Roh D. H. . ( 2011;). Flavobacterium chungbukense sp. nov., isolated from soil. . Int J Syst Evol Microbiol 61: 2734–2739. [CrossRef] [PubMed]
    [Google Scholar]
  22. Liu H. , Liu R. , Yang S. Y. , Gao W. K. , Zhang C. X. , Zhang K. Y. , Lai R. . ( 2008;). Flavobacterium anhuiense sp. nov., isolated from field soil. . Int J Syst Evol Microbiol 58: 756–760. [CrossRef] [PubMed]
    [Google Scholar]
  23. 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]
  24. 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. [CrossRef]
    [Google Scholar]
  25. Minnikin D. E. , O’Donnel A. G. , Goodfellow M. , Alderson G. , Athalye M. , Schaal A. , Parleet 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]
  26. Moore D. D. , Dowhan D. . ( 1995;). Preparation and Analysis of DNA. . In Current Protocols in Molecular Biology, pp. 2–11. Ausubel F. W. , Brent R. , Kingston R. E. , Moore D. D. , Seidman J. G. , Smith J. A. , Struhl K. . New York:: Wiley;.
    [Google Scholar]
  27. Ngo H. T. , Kook M. , Yi T. H. . ( 2015;). Flavobacterium daemonensis sp. nov., isolated from daemo mountain soil. . Int J Syst Evol Microbiol 65: 983–989. [CrossRef] [PubMed]
    [Google Scholar]
  28. Saitou N. , Nei M. . ( 1987;). The neighbor-joining method: A new method for reconstructing phylogenetic trees. . Mol Bio Evol 4: 406–425.
    [Google Scholar]
  29. Sasser M. . ( 1990;). Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids. . MIDI Technical Note 101, Newark, DE:: MIDI Inc;.
    [Google Scholar]
  30. Sheu S. Y. , Lin Y. S. , Chen W. M. . ( 2013;). Flavobacterium squillarum sp. nov., isolated from a freshwater shrimp culture pond, and emended descriptions of Flavobacterium haoranii, Flavobacterium cauense, Flavobacterium terrae and Flavobacterium aquatile . . Int J Syst Evol Microbiol 63: 2239–2247. [CrossRef] [PubMed]
    [Google Scholar]
  31. Subhash Y. , Sasikala C. , Ramana C. H. V. . ( 2013;). Flavobacterium aquaticum sp. nov., isolated from a water sample of a rice field. . Int J Syst Evol Microbiol 63: 3463–3469. [CrossRef] [PubMed]
    [Google Scholar]
  32. Tamaoka J. , Katayama-Fujiruma A. , Kuraishi H. . ( 1983;). Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. . J Appl Bacteriol 54: 31–36. [CrossRef]
    [Google Scholar]
  33. 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. . MolBiolEvol 28: 2731–2739. [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. 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. et al. ( 1987;). 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. Yang J. E. , Kim S. Y. , Im W. T. , Yi T. H. . ( 2011;). Flavobacterium ginsenosidimutans sp. nov., a bacterium with ginsenoside converting activity isolated from soil of a ginseng field. . Int J Syst Evol Microbiol 61: 1408–1412. [CrossRef] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001104
Loading
/content/journal/ijsem/10.1099/ijsem.0.001104
Loading

Data & Media loading...

Supplements

Supplementary File 1



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