1887

Abstract

The taxonomic positions of two clinically isolated actinomycetes were established using a polyphasic approach. The two strains, IFM 10032, isolated from ear discharge of a 28-year-old Japanese female patient with external otitis, and IFM 10148, isolated from pleural fluid of a 60-year-old Japanese male patient with bronchitis, possessed -diaminopimelic acid as the diagnostic amino acid, MK-9(H) as the predominant menaquinone and mycolic acids ranging from 58 to 64 carbons. The 16S rRNA gene sequences of the two strains were most closely related to those of , and ‘’. Differences in several phenotypic characteristics together with genotypic distinctiveness distinguish strains IFM 10032 and IFM 10148 from these three species. DNA–DNA hybridization results and the combination of genotypic and phenotypic data showed that the two strains belong to a single species, and merit recognition of a novel species within the genus . The name proposed for this taxon is sp. nov.; the type strain is IFM 10032 (=DSM 44809=JCM 12355=NBRC 100426).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.63282-0
2005-09-01
2019-10-20
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/55/5/ijs551871.html?itemId=/content/journal/ijsem/10.1099/ijs.0.63282-0&mimeType=html&fmt=ahah

References

  1. Arenskotter, M., Linos, A., Schumann, P., Kroppenstedt, R. M. & Steinbuchel, A. ( 2005; ). Gordonia nitida Yoon et al. 2000 is a later synonym of Gordonia alkanivorans Kummer et al. 1999. Int J Syst Evol Microbiol 55, 695–697.[CrossRef]
    [Google Scholar]
  2. Chun, J. & Goodfellow, M. ( 1995; ). A phylogenetic analysis of genus Nocardia with 16S rRNA gene sequences. Int J Syst Bacteriol 45, 240–245.[CrossRef]
    [Google Scholar]
  3. de Miguel, T., Sieiro, C., Poza, M. & Villa, T. G. ( 2000; ). Isolation and taxonomic study of a new canthaxanthin-containing bacterium, Gordonia jacobaea MV-1 sp. nov. Int Microbiol 3, 107–111.
    [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. Goodfellow, M. ( 1992; ). The family Nocardiaceae. In The Prokaryotes, 2nd edn, pp. 1188–1213. Edited by A. Balows, H. G. Trüper, M. Dworkin, W. Harder & K. H. Schleifer. New York: Springer.
  6. Kageyama, A., Poonwan, N., Yazawa, K., Mikami, Y. & Nishimura, K. ( 2004a; ). Nocardia asiatica sp. nov., isolated from patients with nocardiosis in Japan and clinical specimens from Thailand. Int J Syst Evol Microbiol 54, 125–130.[CrossRef]
    [Google Scholar]
  7. Kageyama, A., Yazawa, K., Nishimura, K. & Mikami, Y. ( 2004b; ). Nocardia inohanensis sp. nov., Nocardia yamanashiensis sp. nov. and Nocardia niigatensis sp. nov., isolated from clinical specimens. Int J Syst Evol Microbiol 54, 563–569.[CrossRef]
    [Google Scholar]
  8. 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]
  9. Kim, S. B., Brown, R., Oldfield, C., Gilbert, S. C., Iliarionov, S. & Goodfellow, M. ( 2000; ). Gordonia amicalis sp. nov., a novel dibenzothiophene-desulphurizing actinomycete. Int J Syst Evol Microbiol 50, 2031–2036.[CrossRef]
    [Google Scholar]
  10. Kim, K. K., Lee, C. S., Kroppenstedt, R. M., Stackebrandt, E. & Lee, S. T. ( 2003; ). Gordonia sihwensis sp. nov., a novel nitrate-reducing bacterium from a wastewater-treatment bioreactor. Int J Syst Evol Microbiol 53, 1427–1433.[CrossRef]
    [Google Scholar]
  11. Kimura, M. & Ohta, T. ( 1972; ). On the stochastic model for estimation of mutational distance between homologous proteins. J Mol Evol 2, 87–90.[CrossRef]
    [Google Scholar]
  12. Klatte, S., Rainey, F. A. & Kroppenstedt, R. M. ( 1994; ). Transfer of Rhodococcus aichiensis Tsukamura 1982 and Nocardia amarae Lechevalier and Lechevalier 1974 to the genus Gordona as Gordona aichiensis comb. nov. and Gordona amarae comb. nov. Int J Syst Bacteriol 44, 769–773.[CrossRef]
    [Google Scholar]
  13. Lechevalier, M. P. & Lechevalier, H. A. ( 1980; ). The chemotaxonomy of actinomycetes. In Actinomycete Taxonomy, pp. 227–291. Edited by A. Dietz & D. W. Thayer. Fairfax, VA: Society for Industrial Microbiology.
  14. Linos, A., Steinbuchel, A., Spröer, C. & Kroppenstedt, R. M. ( 1999; ). Gordonia polyisoprenivorans sp. nov., a rubber-degrading actinomycete isolated from an automobile tyre. Int J Syst Bacteriol 49, 1785–1791.[CrossRef]
    [Google Scholar]
  15. Linos, A., Berekaa, M. M., Steinbuchel, A., Kim, K. K., Spröer, C. & Kroppenstedt, R. M. ( 2002; ). Gordonia westfalica sp. nov., a novel rubber-degrading actinomycete. Int J Syst Evol Microbiol 52, 1133–1139.[CrossRef]
    [Google Scholar]
  16. Maldonado, L. A., Stainsby, F. M., Ward, A. C. & Goodfellow, M. ( 2003; ). Gordonia sinesedis sp. nov., a novel soil isolate. Antonie van Leeuwenhoek 83, 75–80.[CrossRef]
    [Google Scholar]
  17. Minnikin, D. E., Hutchinson, I. G., Caldicott, A. B. & Goodfellow, M. ( 1980; ). Thin-layer chromatography of methanolysates of mycolic acid-containing bacteria. J Chromatogr 188, 221–233.[CrossRef]
    [Google Scholar]
  18. Miyadoh, M. ( 2001; ). Identification procedure at the genus level. In Identification Manual of Actinomycetes, pp. 9–19. Edited by S. Miyadoh, M. Hamada, K. Hotta, T. Kudo, A. Seino, K. Suzuki & A. Yokota. Tokyo: Business Center for Academic Societies.
  19. Saito, H. & Miura, K. ( 1983; ). Preparation of transforming deoxyribonucleic acid by phenol treatment. Biochim Biophys Acta 72, 619–629.
    [Google Scholar]
  20. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  21. Sasser, M. ( 1990; ). Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 20, 1–6.
    [Google Scholar]
  22. Stackebrandt, E. & Goebel, B. M. ( 1994; ). Taxonomic note: 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]
  23. Stackebrandt, E., Rainey, F. A. & Ward-Rainey, N. L. ( 1988; ). Evidence of phylogenetic heterogeneity within the genus Rhodococcus: revival of the genus Gordona (Tsukamura). J Gen Appl Microbiol 34, 341–348.[CrossRef]
    [Google Scholar]
  24. Stackebrandt, E., Rainey, F. A. & Ward-Rainey, N. L. ( 1997; ). Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int J Syst Bacteriol 47, 479–491.[CrossRef]
    [Google Scholar]
  25. Staneck, J. L. & Roberts, G. D. ( 1974; ). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28, 226–231.
    [Google Scholar]
  26. Takeuchi, M. & Hatano, K. ( 1998; ). Gordonia rhizosphera sp. nov. isolated from the mangrove rhizosphere. Int J Syst Bacteriol 48, 907–912.[CrossRef]
    [Google Scholar]
  27. Tamaoka, J. & Komagata, K. ( 1984; ). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25, 125–128.[CrossRef]
    [Google Scholar]
  28. Thompson, J. D., Higgins, D. G. & Gibson, T. J. ( 1994; ). clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22, 4673–4680.[CrossRef]
    [Google Scholar]
  29. Tsukamura, M. ( 1971; ). Proposal of new genus, Gordona, for slightly acid-fast organisms occurring in sputa of patients with pulmonary disease and in soil. J Gen Microbiol 68, 15–26.[CrossRef]
    [Google Scholar]
  30. Tsukamura, M. ( 1978; ). Numerical classification of Rhodococcus (formerly Gordona) organisms recently isolated from sputa of patients; description of Rhodococcus sputi Tsukamura sp. nov. Int J Syst Bacteriol 28, 169–181.[CrossRef]
    [Google Scholar]
  31. Tsukamura, M. ( 1982; ). Numerical analysis of the taxonomy of nocardiae and rhodococci. Division of Nocardia asteroides sensu stricto into two species and descriptions of Nocardia paratuberculosis sp. nov. Tsukamura (formerly the Kyoto-I group of Tsukamura), Nocardia nova sp. nov. Tsukamura, Rhodococcus aichiensis sp. nov. Tsukamura, Rhodococcus chubuensis sp. nov. Tsukamura, and Rhodococcus obuensis sp. nov. Tsukamura. Microbiol Immunol 26, 1101–1119.[CrossRef]
    [Google Scholar]
  32. 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]
  33. Xue, Y., Sun, X., Zhou, P., Liu, R., Liang, F. & Ma, Y. ( 2003; ). Gordonia paraffinivorans sp. nov., a hydrocarbon-degrading actinomycete isolated from an oil-producing well. Int J Syst Evol Microbiol 53, 1643–1646.[CrossRef]
    [Google Scholar]
  34. Yoon, J.-H., Lee, J. J., Kang, S.-S., Takeuchi, M., Shin, Y. K., Lee, S. T., Kang, K. H. & Park, Y.-H. ( 2000; ). Gordonia nitida sp. nov., a bacterium that degrades 3-ethylpyridine and 3-methylpyridine. Int J Syst Evol Microbiol 50, 1203–1210.[CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.63282-0
Loading
/content/journal/ijsem/10.1099/ijs.0.63282-0
Loading

Data & Media loading...

Supplements

vol. , part 5, pp. 1871 - 1876

Compound utilization patterns of strains of sp. nov. and other species.

Full results of Biolog GP2 assay for strains and related species.

[Single PDF file](33 KB)



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