1887

Abstract

An actinomycete, designated strain T66 and isolated from soybean rhizosphere soil at Gyeonggi Siheung Sorae in the Republic of Korea, has antibiotic activity against a broad range of microbial pathogens. The strain was determined to be closely related to several known species in the genus on the basis of 16S rRNA gene sequence data (97.73–98.07 % similarity). The strain exhibited cell-wall chemotype I and phospholipid type II. The menaquinones present were MK-9 (H), MK-9 (H) and MK-10 (H). Major fatty acids were anteiso-C, iso-C, iso-C, and anteiso-C. The level of DNA–DNA relatedness between strain T66 and closely related type strains was determined to be below 40 %. Strain T66 had spiral spore chains and a rugose spore surface that is different from its closest relatives. Comparison of the genotypic and phenotypic features confirmed that strain T66 ( = KEMB 9005-219 = KACC 18226 = NBRC 110902) should be considered as the type strain of a novel species in the genus , for which the name sp. nov. is proposed.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.000551
2015-11-01
2020-01-18
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/11/4151.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.000551&mimeType=html&fmt=ahah

References

  1. Collins M.D. . ( 1985;). Analysis of isoprenoidquinones. Methods Microbiol 18: 329–366 [CrossRef].
    [Google Scholar]
  2. da Costa M.S. , Albuquerque L. , Nobre M.F. , Wait R. . ( 2011;). The identification of polar lipids in prokaryotes. Methods Microbiol 38: 165–181 [CrossRef].
    [Google Scholar]
  3. Embley T.M. , Stackebrandt E. . ( 1994;). The molecular phylogeny and systematics of the actinomycetes. Annu Rev Microbiol 48: 257–289 [CrossRef] [PubMed].
    [Google Scholar]
  4. 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]
  5. Felsenstein J. . ( 1985;). Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39: 783–791 [CrossRef].
    [Google Scholar]
  6. Frank J.A. , Reich C.I. , Sharma S. , Weisbaum J.S. , Wilson B.A. , Olsen G.J. . ( 2008;). Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes. Appl Environ Microbiol 74: 2461–2470 [CrossRef] [PubMed].
    [Google Scholar]
  7. Goodfellow M. . ( 1989;). The Actinomycetes I. Suprageneric classification of actinomycetes. . In Bergey's Manual of Systematic Bacteriology, pp. 2333–2339. Edited by Williams S. T. , Sharpe M. E. , Holt J. G. . vol. 4 Baltimore, MD: Williams & Wilkins;.
    [Google Scholar]
  8. Goodfellow M. , Williams S.T. . ( 1983;). Ecology of actinomycetes. Annu Rev Microbiol 37: 189–216 [CrossRef] [PubMed].
    [Google Scholar]
  9. Goodfellow M. , Ferguson E.V. , Sanglier J.J. . ( 1992;). Numerical classification and identification of Streptomyces species—a review. Gene 115: 225–233 [CrossRef] [PubMed].
    [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. Hatano K. , Nishii T. , Kasai H. . ( 2003;). Taxonomic re-evaluation of whorl-forming Streptomyces (formerly Streptoverticillium) species by using phenotypes, DNA-DNA hybridization and sequences of gyrB, and proposal of Streptomyces luteireticuli (ex Katoh and Arai 1957) corrig., sp. nov., nom. rev. Int J Syst Evol Microbiol 53: 1519–1529 [CrossRef] [PubMed].
    [Google Scholar]
  12. Hofheinz W. , Grisebach H. . ( 1965;). Die Fettsäuren von Streptomyces erythreus and Streptomyces halstedii . Z Naturforsch B 20: 43–53 [PubMed].
    [Google Scholar]
  13. Kämpfer P. . ( 2012;). Genus I. Streptomyces Waksman and Henrici 1943, 339AL emend. Witt and Stackebrandt 1990, 370 emend. Wellington, Stackebrandt, Sanders, Wolstrup and Jorgensen 1992, 159. . In Bergeys Manual of Systematic Bacteriology, pp. 1455–1767. Edited by Goodfellow M. , Kämpfer P. , Busse H. -J. , Trujillo M. E. , Suzuki K. , Ludwig W. , Whitman W. B. . vol. 5 , 2nd edn.., New York: Springer;.[CrossRef]
    [Google Scholar]
  14. Kämpfer P. , Kroppenstedt R.M. , Dott W. . ( 1991;). A numerical classification of the genera Streptomyces and Streptoverticellium using miniaturized physiological tests. J Gen Microbiol 137: 1831–1891 [CrossRef].
    [Google Scholar]
  15. 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]
  16. Kimura M. . ( 1983;). Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press;. [CrossRef].
    [Google Scholar]
  17. Korn-Wendisch F. , Kutzner H.J. . ( 1992;). The family Streptomycetaceae . . In The Prokaryotes: a Handbook on the Biology of Bacteria: Ecophysiology, Isolation, Identification, Applications, pp. 921–995. Edited by Balows A. , Trüper H. G. , Dworkin M. , Harder W. , Schleifer K. H. . New York: Springer;.
    [Google Scholar]
  18. Küster E. . ( 1959;). Outline of a comparative study of criteria used in characterization of the actinomycetes. Intern Bull Bacteriol Nomencl Taxon 9: 97–104.
    [Google Scholar]
  19. Labeda D.P. , Goodfellow M. , Brown R. , Ward A.C. , Lanoot B. , Vanncanneyt M. , Swings J. , Kim S.B. , Liu Z. , other authors . ( 2012;). Phylogenetic study of the species within the family Streptomycetaceae . Antonie van Leeuwenhoek 101: 73–104 [CrossRef] [PubMed].
    [Google Scholar]
  20. Lanoot B. , Vancanneyt M. , Cleenwerck I. , Wang L. , Li W. , Liu Z. , Swings J. . ( 2002;). The search for synonyms among streptomycetes by using SDS-PAGE of whole-cell proteins. Emendation of the species Streptomyces aurantiacus, Streptomyces cacaoi subsp. cacaoi, Streptomyces caeruleus and Streptomyces violaceus . Int J Syst Evol Microbiol 52: 823–829 [CrossRef] [PubMed].
    [Google Scholar]
  21. Lanoot B. , Vancanneyt M. , Dawyndt P. , Cnockaert M. , Zhang J. , Huang Y. , Liu Z. , Swings J. . ( 2004;). BOX-pCR fingerprinting as a powerful tool to reveal synonymous names in the genus Streptomyces. Emended descriptions are proposed for the species Streptomyces cinereorectus, S. fradiae, S. tricolor, S. colombiensis, S. filamentosus, S. vinaceus and S. phaeopurpureus . Syst Appl Microbiol 27: 84–92 [CrossRef] [PubMed].
    [Google Scholar]
  22. Lechevalier M.P. , Lechevalier H.A. . ( 1970;). Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20: 435–443 [CrossRef].
    [Google Scholar]
  23. Lechevalier M.P. , Lechevalier H.A. . ( 1980;). The chemotaxonomy of actinomycetes. . In Actinomycete Taxonomy (Society for Industrial Microbiology Special Publication no. 6) , pp. 227–291. Edited by Dietz A. , Thayer J. . Arlington, VA: Society for Industrial Microbiology;.
    [Google Scholar]
  24. Lechevalier M.P. , Moss C.W. . ( 1977;). Lipids in bacterial taxonomy – a taxonomist's view. CRC Crit Rev Microbiol 5: 109–210 [CrossRef] [PubMed].
    [Google Scholar]
  25. Lechevalier M.P. , de Bievre C. , Lechevalier H.A. . ( 1977;). Chemotaxonomy of aerobic actinomycetes: phospholipid composition. Biochemistry and Ecological Systems 5: 249–260 [CrossRef].
    [Google Scholar]
  26. Lechevalier M.P. , Stern A.E. , Lechevalier H.A. . ( 1981;). Phospholipids in the taxonomy of actinomycetes. Zentralbl Bakteriol Hyg Abt 1: (Suppl. 11), 111–116.
    [Google Scholar]
  27. Locci R. . ( 1989;). Streptomycetes and related genera. . In Bergey's Manual of Systematic Bacteriology, pp. 2451–2508. Edited by Williams S. T. , Sharpe M. E. , Holt J. G. . vol. 4 Baltimore, MD: Williams & Wilkins;.
    [Google Scholar]
  28. 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]
  29. Newman D.J. , Cragg G.M. . ( 2012;). Natural products as sources of new drugs over the 30 years from 1981 to 2010. J Nat Prod 75: 311–335 [CrossRef] [PubMed].
    [Google Scholar]
  30. Nikodinovic J. , Barrow K.D. , Chuck J.A. . ( 2003;). High yield preparation of genomic DNA from Streptomyces . Biotechniques 35: 932–934, 936 [PubMed].
    [Google Scholar]
  31. Petrosyan P. , García-Varela M. , Luz-Madrigal A. , Huitrón C. , Flores M.E. . ( 2003;). Streptomyces mexicanus sp. nov., a xylanolytic micro-organism isolated from soil. Int J Syst Evol Microbiol 53: 269–273 [CrossRef] [PubMed].
    [Google Scholar]
  32. Popísil S. , Rezanka T. , Viden I. , Krumphanzl V. , Vanek Z. . ( 1985;). Altered fatty acid composition in regulatory mutants of Streptomyces cinnamonensis . FEMS Microbiol Lett 27: 41–43 [CrossRef].
    [Google Scholar]
  33. Pridham T.G. , Lyons A.J. Jr . ( 1961;). Streptomyces albus (Rossi-Doria) Waksman et Henrici: taxonomic study of strains labeled Streptomyces albus . J Bacteriol 81: 431–441 [PubMed].
    [Google Scholar]
  34. Pridham T.G. , Anderson P. , Foley C. , Lindenfelser L.A. , Hesseltine C.W. , Benedict R.G. . ( 1956–1957;). A selection of media for maintenance and taxonomic study of Streptomyces . Antibiot Annu 1956: 947–953 [PubMed].
    [Google Scholar]
  35. Rainey F. A. , Oren A. . ), ( 2011;). Taxonomy of Prokaryotes (Methods in Microbiology vol. 38) Amsterdam: Elsevier;.
    [Google Scholar]
  36. Saddler G.S. , Goodfellow M. , Minnikin D.E. , O'Donnell A.G. . ( 1986;). Influence of the growth cycle on the fatty acid and menaquinone composition of Streptomyces cyaneus NCIB 9616. J Appl Bacteriol 60: 51–56 [CrossRef].
    [Google Scholar]
  37. Saddler G.S. , O'Donnell A.G. , Goodfellow M. , Minnikin D.E. . ( 1987;). SIMCA pattern recognition in the analysis of Streptomycete fatty acids. J Gen Microbiol 133: 1137–1147.
    [Google Scholar]
  38. Sasser M. . ( 1990;). Identification of bacteria by gas chromatography of cellular fatty acids MIDI Technical Note 101 Newark, DE: MIDI Inc;.
    [Google Scholar]
  39. Sembiring L. , Ward A.C. , Goodfellow M. . ( 2000;). Selective isolation and characterisation of members of the Streptomyces violaceusniger clade associated with the roots of Paraserianthes falcataria . Antonie van Leeuwenhoek 78: 353–366 [CrossRef] [PubMed].
    [Google Scholar]
  40. Shinobu R. . ( 1958;). Physiological and cultural study for the identification of soil actinomycete species. Mem Osaka Univ Lib Arts Educ Ser B Nat Sci 7: l–76.
    [Google Scholar]
  41. Shirling E.B. , Gottlieb D. . ( 1966;). Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16: 313–340 [CrossRef].
    [Google Scholar]
  42. Shirling E.B. , Gottlieb D. . ( 1969;). Cooperative description of type cultures of Streptomyces. IV. Species descriptions from the second, third and fourth studies. Int J Syst Bacteriol 19: 391–512 [CrossRef].
    [Google Scholar]
  43. Shirling E.B. , Gottlieb D. . ( 1972;). Cooperative description of type strains of Streptomyces . Int J Syst Bacteriol 22: 265–394 [CrossRef].
    [Google Scholar]
  44. Stackebrandt E. , Goebel B.M. . ( 1994;). Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44: 846–849 [CrossRef].
    [Google Scholar]
  45. Staneck J.L. , Roberts G.D. . ( 1974;). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28: 226–231 [PubMed].
    [Google Scholar]
  46. 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]
  47. 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]
  48. Waksman S.A. , Henrici A.T. . ( 1943;). The nomenclature and classification of the actinomycetes. J Bacteriol 46: 337–341 [PubMed].
    [Google Scholar]
  49. 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]
  50. Williams S.T. , Wellington E.M.H. . ( 1982;). Actinomycetes. . In Methods of Soil Analysis. Part 2. Chemical and Biological Properties, pp. 969–987. Edited by Page A. L. , Miller R. H. , Keeney D. R. . , 2nd edn.., Madison, WI: American Society for Agronomy & Soil Science Society of America;.
    [Google Scholar]
  51. Williams S.T. , Goodfellow M. , Alderson G. , Wellington E.M.H. , Sneath P.H.A. , Sackin M.J. . ( 1983;). Numerical classification of Streptomyces and related genera. J Gen Microbiol 129: 1743–1813 [PubMed].
    [Google Scholar]
  52. Williams S.T. , Goodfellow M. , Alderson G. . ( 1989;). Genus Streptomyces Waksman and Henrici 1943, 339AL . . In Bergey's Manual of Systematic Bacteriology, pp. 2452–2492. Edited by Williams S. T. , Sharpe M. E. , Holt J. G. . vol. 4 Baltimore, MD: Williams & Wilkins;.
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.000551
Loading
/content/journal/ijsem/10.1099/ijsem.0.000551
Loading

Data & Media loading...

Supplements

Supplementary Data



PDF

Most cited articles

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