1887

Abstract

A novel strain, designated EUM 374, was isolated from the root of a native Australian eucalyptus tree,, and subjected to a range of morphological, phylogenetic and chemotaxonomic analyses. The strain was Gram-reaction-positive with well-developed aerial mycelia, which fragmented into rod-shaped spores that had unique knobby protrusions on the spore surface. Substrate mycelia were not present in the media used. Strain EUM 374 grew as a film on the surface of static liquid culture medium but did not grow under shaking conditions. Phylogenetic evaluation based on 16S rRNA gene sequences identified the new isolate as belonging to the family with sequence similarities of 96.1 and 96.3 % to GMKU095 and LM 141, respectively, and 93–96 % sequence similarity to other members of the genus . The results of comprehensive phylogenetic analyses, including physiological and biochemical tests, differentiated strain EUM 374 from related members of the genus . Based on the phenotypic, phylogenetic and chemotaxonomic evidence, strain EUM 374 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is EUM 374 ( = DSM 45351  = ACM 5285).

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2011-04-01
2021-10-26
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References

  1. Altschul S. F., Madden T. L., Schäffer 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 [View Article][PubMed]
    [Google Scholar]
  2. Atlas R. M. 1993 Handbook of Microbiological Media Edited by Parks L. C. Boca Raton: 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. Chen H. H., Qin S., Li J., Zhang Y. Q., Xu L. H., Jiang C. L., Kim C. J., Li W. J. 2009; Pseudonocardia endophytica sp. nov., isolated from the pharmaceutical plant Lobelia clavata . Int J Syst Evol Microbiol 59:559–563 [View Article][PubMed]
    [Google Scholar]
  5. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230[PubMed] [CrossRef]
    [Google Scholar]
  6. 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 and sequencing of 16S rRNA clones. Appl Environ Microbiol 70:1787–1794 [View Article][PubMed]
    [Google Scholar]
  7. Coombs J. T., Franco C. M. M. 2003; Isolation and identification of actinobacteria from surface-sterilized wheat roots. Appl Environ Microbiol 69:5603–5608 [View Article][PubMed]
    [Google Scholar]
  8. Duangmal K., Thamchaipenet A., Matsumoto A., Takahashi Y. 2009; Pseudonocardia acaciae sp. nov., isolated from roots of Acacia auriculiformis A. Cunn. ex Benth. Int J Syst Evol Microbiol 59:1487–1491 [View Article][PubMed]
    [Google Scholar]
  9. Evtushenko L. I., Akimov V. N., Dobritsa S. V., Taptykova S. D. 1989; A new species of actinomycete, Amycolata alni . Int J Syst Bacteriol 39:72–77 [View Article]
    [Google Scholar]
  10. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [Google Scholar]
  11. Gordon R. E., Barnett D. A., Handerhan J. E., Pang C. H. 1974; Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. Int J Syst Bacteriol 24:54–63 [View Article]
    [Google Scholar]
  12. Gu Q., Luo H., Zheng W., Liu Z., Huang Y. 2006; Pseudonocardia oroxyli sp. nov., a novel actinomycete isolated from surface-sterilized Oroxylum indicum root. Int J Syst Evol Microbiol 56:2193–2197 [View Article][PubMed]
    [Google Scholar]
  13. Hasegawa T., Takisawa M., Tanida S. 1983; A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 29:319–322 [View Article]
    [Google Scholar]
  14. Hayakawa M. T., Nonomura H. 1987; Humic acid–vitamin agar, a new medium for the selective isolation of soil actinomycetes. J Ferment Technol 65:501–509 [CrossRef]
    [Google Scholar]
  15. Henssen A. 1957; [Morphology and system of thermophilic actinomycetes]. Arch Mikrobiol 26:373–414 (in German) [View Article][PubMed]
    [Google Scholar]
  16. Huang Y., Wang L., Lu Z., Hong L., Liu Z., Tan G. Y. A., Goodfellow M. 2002; Proposal to combine the genera Actinobispora and Pseudonocardia in an emended genus Pseudonocardia, and description of Pseudonocardia zijingensis sp. nov.. Int J Syst Evol Microbiol 52:977–982 [View Article][PubMed]
    [Google Scholar]
  17. Kaewkla O., Franco C. M. M. 2010; Pseudonocardia adelaidensis sp. nov., an endophytic actinobacterium isolated from the surface-sterilized stem of a grey box tree (Eucalyptus microcarpa). Int J Syst Evol Microbiol 60:2818–2822 [View Article][PubMed]
    [Google Scholar]
  18. 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 [View Article][PubMed]
    [Google Scholar]
  19. Kluge A. G., Farris F. S. 1969; Quantitative phyletics and the evolution of anurans. Syst Zool 18:1–32 [View Article]
    [Google Scholar]
  20. Kornerup J., Wanscher H. 1978 Methuen Handbook of Colour, 3rd edn. Edited by Pavey D. Fakenham, Norfolk: Cox & Wyman Ltd;
    [Google Scholar]
  21. Kurup P. V., Schmitt J. A. 1973; Numerical taxonomy of Nocardia . Can J Microbiol 19:1035–1048 [View Article][PubMed]
    [Google Scholar]
  22. Lee S. D., Kim E. S., Hah Y. C. 2000; Phylogenetic analysis of the genera Pseudonocardia and Actinobispora based on 16S ribosomal DNA sequences. FEMS Microbiol Lett 182:125–129 [View Article][PubMed]
    [Google Scholar]
  23. Lee S. D., Kim E. S., Min K. L., Lee W. Y., Kang S. O., Hah Y. C. 2001; Pseudonocardia kongjuensis sp. nov., isolated from a gold mine cave. Int J Syst Evol Microbiol 51:1505–1510[PubMed]
    [Google Scholar]
  24. Lee S. D., Kim E. S., Kang S. O., Hah Y. C. 2002; Pseudonocardia spinosispora sp. nov., isolated from Korean soil. Int J Syst Evol Microbiol 52:1603–1608 [View Article][PubMed]
    [Google Scholar]
  25. Liu Z. P., Wu J. F., Liu Z. H., Liu S. J. 2006; Pseudonocardia ammonioxydans sp. nov., isolated from coastal sediment. Int J Syst Evol Microbiol 56:555–558 [View Article][PubMed]
    [Google Scholar]
  26. Mahendra S., Alvarez-Cohen L. 2005; Pseudonocardia dioxanivorans sp. nov., a novel actinomycete that grows on 1,4-dioxane. Int J Syst Evol Microbiol 55:593–598 [View Article][PubMed]
    [Google Scholar]
  27. McVeigh H. P., Munro J., Embley T. M. 1994; The phylogenetic position of Pseudoamycolata halophobica (Akimov et al. 1989) and a proposal to reclassify it as Pseudonocardia halophobica . Int J Syst Bacteriol 44:300–302 [View Article][PubMed]
    [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 [View Article]
    [Google Scholar]
  29. MIDI (1993). Microbial Identification System Operational Manual. Newark, NJ: MIDI.
  30. 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[PubMed] [CrossRef]
    [Google Scholar]
  31. 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 [View Article]
    [Google Scholar]
  32. Reichert K., Lipski A., Pradella S., Stackebrandt E., Altendorf K. 1998; Pseudonocardia asaccharolytica sp. nov. and Pseudonocardia sulfidoxydans sp. nov., two new dimethyl disulfide-degrading actinomycetes and emended description of the genus Pseudonocardia . Int J Syst Bacteriol 48:441–449[PubMed] [CrossRef]
    [Google Scholar]
  33. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425[PubMed]
    [Google Scholar]
  34. Sasser, M. (2001). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical note 101. Newark, DE: MIDI Inc.
  35. 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 [View Article]
    [Google Scholar]
  36. Tamura K., Dudley J., Nei M., Kumar S. 2007; mega 4: Molecular Evolutionary Genetics Analysis (mega) software version 4.0. Mol Biol Evol 24:1596–1599 [View Article][PubMed]
    [Google Scholar]
  37. 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 [View Article][PubMed]
    [Google Scholar]
  38. Uchida K., Kudo T., Suzuki K. I., 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 [View Article][PubMed]
    [Google Scholar]
  39. Warwick S., Bowen T., McVeigh H., Embley T. M. 1994; A phylogenetic analysis of the family Pseudonocardiaceae and the genera Actinokineospora and Saccharothrix with 16S rRNA sequences and a proposal to combine the genera Amycolata and Pseudonocardia in an emended genus Pseudonocardia . Int J Syst Bacteriol 44:293–299 [View Article][PubMed]
    [Google Scholar]
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