1887

Abstract

A novel actinobacterium strain, CAP 290, was isolated from a surface-sterilized root of an Australian native pine tree, . Comparative 16S rRNA gene sequence analysis showed that the strain belongs to the family Strain CAP 290 was most closely related to JCM 6044 (97.4 % 16S rRNA gene sequence similarity) and IFM 0706 (96.7 %); similarity to other type strains of the genus ranged from 95 to 97 %. Chemotaxonomic data [-diaminopimelic acid, major menaquinone MK-8(H), major fatty acid C and mycolate in the cell wall] confirmed the affiliation of strain CAP 290 to the genus The results of the phylogenetic analysis, together with the physiological and biochemical tests, allowed the differentiation of strain CAP 290 from strains of other species. Therefore, strain CAP 290 represents a novel species, the first endophytic actinobacterium to be identified as belonging to the genus , for which the name sp. nov. is proposed. The type strain is strain CAP 290 (=DSM 45353 =ACM 5287).

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2010-07-01
2024-03-28
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References

  1. Altschul S. F., Madden T. L., Schaffer A. A., Zhang J., Zhang Z., Miller W., Lipman D. J. 1997; Gapped blast and psi-blast: a new generation of protein database search programs. Nucleic Acids Res 25:3389–3402 [CrossRef]
    [Google Scholar]
  2. Atlas R. M. 1993 Handbook of Microbiological Media , . Edited by Parks L. C. Boca Raton, FL: CRC Press;
    [Google Scholar]
  3. Bousfield I. J., Keddie R. M., Dando T. R., Shaw S. 1985; Simple rapid methods of cell wall analysis as an aid in the identification of aerobic coryneform bacteria. Soc Appl Bacteriol Tech Ser 20:221–236
    [Google Scholar]
  4. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230 [CrossRef]
    [Google Scholar]
  5. Conn V. M., Franco C. M. M. 2004; Analysis of the endophytic actinobacterial population in the roots of wheat ( Triticum aestivum L.) by terminal restriction fragment length polymorphism (T-RFLP) and sequencing of 16S rRNA clones. Appl Environ Microbiol 70:1787–1794 [CrossRef]
    [Google Scholar]
  6. Coombs J. T., Franco C. M. M. 2003; Isolation and identification of actinobacteria from surface-sterilized wheat roots. Appl Environ Microbiol 69:5603–5608 [CrossRef]
    [Google Scholar]
  7. Ellis R. C., Zabrowarny L. A. 1993; Safer staining method for acid fast bacilli. J Clin Pathol 46:559–560 [CrossRef]
    [Google Scholar]
  8. Euzéby J. P. 1997; List of Bacterial Names with Standing in Nomenclature: a folder available on the Internet. Int J Syst Bacteriol 47:590–592 [CrossRef]
    [Google Scholar]
  9. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [CrossRef]
    [Google Scholar]
  10. Goodfellow M., Lechevalier M. P. 1989; Genus Nocardia Trevisan 1889, 9AL . In Bergey's Manual of Systematic Bacteriology vol. 4 pp 2348–2361 Edited by Williams S. T., Sharpe M. E., Holt J. G. Baltimore: Williams & Wilkins;
    [Google Scholar]
  11. Goodfellow M., Maldonado L. 2006; The families Dietziaceae , Gordoniaceae , Nocardiaceae and Tsukamurellaceae . In The Prokaryotes: a Handbook on the Biology of Bacteria . , 3rd edn. vol 3 pp 843–888 Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K. H., Stackebrandt E. New York: Springer;
  12. Gordon R. E., Barnett D. A., Handerhan J. E., Pang C. H.-N. 1974; Nocardia coeliaca , Nocardia autotrophica , and the nocardin strain. Int J Syst Bacteriol 24:54–63 [CrossRef]
    [Google Scholar]
  13. 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]
  14. Hoshino Y., Watanabe K., Iida S., Suzuki S., Kudo T., Kogure T., Yazawa K., Ishikawa J., Kroppenstedt R. M., Mikami Y. 2007; Nocardia terpenica sp. nov., isolated from Japanese patients with nocardiosis. Int J Syst Evol Microbiol 57:1456–1460 [CrossRef]
    [Google Scholar]
  15. Hudson J. A., Schofield K. A., Morgan H. W., Daniel R. M. 1989; Thermonema lapsum gen. nov., sp. nov., a thermophilic gliding bacterium. Int J Syst Bacteriol 39:485–487 [CrossRef]
    [Google Scholar]
  16. 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]
  17. Kluge A. G., Farris J. S. 1969; Quantitative phyletics and the evolution of anurans. Syst Zool 18:1–32 [CrossRef]
    [Google Scholar]
  18. Kornerup A., Wanscher J. H. 1978 Methuen Handbook of Colour , 3rd edn. London: Eyre Methuen;
    [Google Scholar]
  19. Kurup P. V., Schmitt J. A. 1973; Numerical taxonomy of Nocardia . Can J Microbiol 19:1035–1048 [CrossRef]
    [Google Scholar]
  20. 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]
  21. 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]
  22. Minnikin D. E., Alshamaony L., Goodfellow M. 1975; Differentiation of Mycobacterium , Nocardia and related taxa by thin-layer chromatographic analysis of whole-organism methanolysates. J Gen Microbiol 88:200–204 [CrossRef]
    [Google Scholar]
  23. Minnikin D. E., Hutchinson I. G., Caldicott A. B., Goodfellow M. 1980; Thin layer chromatography of methanolysates of mycolic acid-containing bacteria. J Chromatogr A 188:221–233 [CrossRef]
    [Google Scholar]
  24. Ruimy R., Riegel P., Carlotti A., Boiron P., Bernardin G., Monteil H., Wallace R. J., Christen R. 1996; Nocardia pseudobrasiliensis sp. nov., a new species of Nocardia which groups bacterial strains previously identified as Nocardia brasiliensis and associated with invasive diseases. Int J Syst Bacteriol 46:259–264 [CrossRef]
    [Google Scholar]
  25. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
    [Google Scholar]
  26. Sasser M. 2001 Identification of bacteria by gas chromatography of cellular fatty acids , MIDI Technical Note 101 Newark, DE: MIDI Inc;
    [Google Scholar]
  27. Schoenborn L., Yates P. S., Grinton B. E., Hugenholtz P., Janssen P. H. 2004; Liquid serial dilution is inferior to solid media for isolation of cultures representative of the phylum-level diversity of soil bacteria. Appl Environ Microbiol 70:4363–4366 [CrossRef]
    [Google Scholar]
  28. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [CrossRef]
    [Google Scholar]
  29. 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]
  30. Tamura K., Dudley J., Nei M., Kumar S. 2007; mega4: molecular evolutionary genetics analysis (mega) software version 4.0. Mol Biol Evol 24:1596–1599 [CrossRef]
    [Google Scholar]
  31. 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]
  32. Uchida K., Kudo T., Suzuki K., Nakase T. 1999; A new rapid method of glycolate test by diethyl ether extraction, which is applicable to a small amount of bacterial cells of less than one milligram. J Gen Appl Microbiol 45:49–56 [CrossRef]
    [Google Scholar]
  33. 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]
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