1887

Abstract

An actinomycete, strain FXJ46, was isolated from cypress forest soil in northern China and shown to have chemotaxonomic and morphological properties consistent with streptomycetes. It developed greyish aerial mycelium and pinkish-brown substrate mycelium on oatmeal agar. Phylogenetic analyses based on an almost complete 16S rRNA gene sequence of the strain and on the 120 nucleotide variable -region of this molecule showed that it formed a distinct (but closely associated) line with DSM 40430 in trees. However, the DNA–DNA relatedness between the two strains was only 48·8 %. A number of phenotypic properties also readily distinguished the isolate from and related species with validly published names. It is proposed, therefore, that this organism be classified as a novel species of the genus , for which the name sp. nov. is proposed. The type strain is FXJ46 (=AS 4.1859=JCM 12279).

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2005-09-01
2019-12-06
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References

  1. Al-Tai, A., Kim, B., Kim, S. B., Manfio, G. P. & Goodfellow, M. ( 1999; ). Streptomyces malaysiensis sp. nov., a new streptomycete species with rugose, ornamented spores. Int J Syst Bacteriol 49, 1395–1402.[CrossRef]
    [Google Scholar]
  2. Anderson, A. S. & Wellington, E. M. H. ( 2001; ). The taxonomy of Streptomyces and related genera. Int J Syst Evol Microbiol 51, 797–814.[CrossRef]
    [Google Scholar]
  3. Christensen, H., Angen, Ø., Mutters, R., Olsen, J. E. & Bisgaard, M. ( 2000; ). DNA–DNA hybridization determined in micro-wells using covalent attachment of DNA. Int J Syst Evol Microbiol 50, 1095–1102.[CrossRef]
    [Google Scholar]
  4. Chun, J. & Goodfellow, M. ( 1995; ). A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences. Int J Syst Bacteriol 45, 240–245.[CrossRef]
    [Google Scholar]
  5. Collins, M. D. ( 1985; ). Isoprenoid quinone analysis in classification and identification. In Chemical Methods in Bacterial Systematics, pp. 267–287. Edited by M. Goodfellow & D. E. Minnikin. London: Academic Press.
  6. Emerson, R. ( 1958; ). Mycological organization. Mycologia 50, 589–621.[CrossRef]
    [Google Scholar]
  7. 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]
  8. Felsenstein, J. ( 1981; ). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef]
    [Google Scholar]
  9. Felsenstein, J. ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef]
    [Google Scholar]
  10. Felsenstein, J. ( 1993; ). phylip – Phylogenetic Inference Package, version 3.5c. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  11. Fitch, W. M. & Margoliash, E. ( 1967; ). Construction of phylogenetic trees: a method based on mutation distances as estimated from cytochrome c sequences is of general applicability. Science 155, 279–284.[CrossRef]
    [Google Scholar]
  12. Hasegawa, T., Takizawa, M. & Tanida, S. ( 1983; ). A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 29, 319–322.[CrossRef]
    [Google Scholar]
  13. Huang, Y., Qi, W., Lu, Z., Liu, Z. & Goodfellow, M. ( 2001; ). Amycolatopsis rubida sp. nov., a new Amycolatopsis species from soil. Int J Syst Evol Microbiol 51, 1093–1097.[CrossRef]
    [Google Scholar]
  14. Kämpfer, P. & Kroppenstedt, R. M. ( 1996; ). Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. Can J Microbiol 42, 989–1005.[CrossRef]
    [Google Scholar]
  15. Kämpfer, P., Kroppenstedt, R. M. & Dott, W. ( 1991; ). A numerical classification of the genera Steptomyces and Streptoverticillium using miniaturized physiological tests. J Gen Microbiol 137, 1831–1891.[CrossRef]
    [Google Scholar]
  16. Kataoka, M., Ueda, K., Kudo, T., Seki, T. & Yoshida, T. ( 1997; ). Application of the variable region in 16S rDNA to create an index for rapid species identification in the genus Streptomyces. FEMS Microbiol Lett 151, 249–255.[CrossRef]
    [Google Scholar]
  17. Kawato, M. & Shinobu, R. ( 1959; ). On Streptomyces herbaricolor sp. nov., supplement: a single technique for microscopical observation. Mem Osaka Univ Lib Arts Educ B Nat Sci 8, 114–119.
    [Google Scholar]
  18. Kim, S. B. & Goodfellow, M. ( 2002; ). Streptomyces avermitilis sp. nov., nom. rev., a taxonomic home for the avermectin-producing streptomycetes. Int J Syst Evol Microbiol 52, 2011–2014.[CrossRef]
    [Google Scholar]
  19. Kim, S. B., Falconer, C., Williams, E. & Goodfellow, M. ( 1998; ). Streptomyces thermocarboxydovorans sp. nov. and Streptomyces thermocarboxydus sp. nov., two moderately thermophilic carboxydotrophic species from soil. Int J Syst Bacteriol 48, 59–68.[CrossRef]
    [Google Scholar]
  20. Kim, B., Al-Tai, A. M., Kim, S. B., Somasundaram, P. & Goodfellow, M. ( 2000; ). Streptomyces thermocoprophilus sp. nov., a cellulase-free endo-xylanase-producing streptomycete. Int J Syst Evol Microbiol 50, 505–509.[CrossRef]
    [Google Scholar]
  21. Kim, S. B., Seong, C. N., Jeon, S. J., Bae, K. S. & Goodfellow, M. ( 2004; ). Taxonomic study on neutrotolerant acidophilic actinomycetes isolated from soil and description of Streptomyces yeochonensis sp. nov. Int J Syst Evol Microbiol 54, 211–214.[CrossRef]
    [Google Scholar]
  22. Kimura, M. ( 1980; ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16, 111–120.[CrossRef]
    [Google Scholar]
  23. Kluge, A. G. & Farris, F. S. ( 1969; ). Quantitative phyletics and the evolution of anurans. Syst Zool 18, 1–32.[CrossRef]
    [Google Scholar]
  24. Kroppenstedt, R. M. ( 1985; ). Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Chemical Methods in Bacterial Systematics, pp. 173–199. Edited by M. Goodfellow & D. E. Minnikin. London: Academic Press.
  25. Labeda, D. P. ( 1988; ). Kitasatosporia mediocidica sp. nov. Int J Syst Bacteriol 38, 287–290.[CrossRef]
    [Google Scholar]
  26. Lechevalier, H. A. & Lechevalier, M. P. ( 1980; ). The chemotaxonomy of actinomycetes. In Actinomycete Taxonomy, Special Publication no. 6, pp. 277–284. Edited by A. Dietz & D. W. Thayer. Arlington, VA: Society of Industrial Microbiology.
  27. Lechevalier, M. P., De Bièvre, C. & Lechevalier, H. A. ( 1977; ). Chemotaxonomy of aerobic actinomycetes: phospholipid composition. Biochem Syst Ecol 5, 249–260.[CrossRef]
    [Google Scholar]
  28. Li, W., Lanoot, B., Zhang, Y., Vancanneyt, M., Swings, J. & Liu, Z. ( 2002; ). Streptomyces scopiformis sp. nov., a novel streptomycete with fastigiate spore chains. Int J Syst Evol Microbiol 52, 1629–1633.[CrossRef]
    [Google Scholar]
  29. Marmur, J. & Doty, P. ( 1962; ). Determination of base composition of deoxyribonucleic acid from its denaturation temperature. J Mol Biol 5, 109–118.[CrossRef]
    [Google Scholar]
  30. Minnikin, D. E., O'Donnell, A. G., Goodfellow, M., Alderson, G., Athalye, M., Schaal, A. & Parlett, J. H. ( 1984; ). An integrated procedure for the extraction of isoprenoid quinones and polar lipids. J Microbiol Methods 2, 233–241.[CrossRef]
    [Google Scholar]
  31. Saintpierre, D., Amir, H., Pineau, R., Sembiring, L. & Goodfellow, M. ( 2003; ). Streptomyces yatensis sp. nov., a novel bioactive streptomycete isolated from a New-Caledonian ultramafic soil. Antonie van Leeuwenhoek 83, 21–26.[CrossRef]
    [Google Scholar]
  32. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  33. Sasser, M. ( 1990; ). Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids. Technical Note 101. Newark, DE: Microbial ID.
  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]
    [Google Scholar]
  35. Wayne, L. G., Brenner, D. J., Colwell, R. R. & 9 other authors ( 1987; ). Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37, 463–464.[CrossRef]
    [Google Scholar]
  36. 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.
    [Google Scholar]
  37. Zhou, Z. H., Liu, Z. H., Qian, Y. D., Kim, S. B. & Goodfellow, M. ( 1998; ). Saccharopolyspora spinosporotrichia sp. nov., a novel actinomycete from soil. Int J Syst Bacteriol 48, 53–58.[CrossRef]
    [Google Scholar]
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vol. , part 5, pp. 1939 - 1944

Scanning electron micrograph of strain FXJ46 grown on oatmeal agar at 28 °C for 14 days.

Partial neighbour-joining tree based on the 120 nt γ-region of the 16S rRNA gene sequence showing relationships between strain FXJ46 and other species.

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