1887

Abstract

A novel actinomycete, designated strain RP-AC36, was isolated from a cliff-associated plant ( Thunb.) in the Republic of Korea and its taxonomic status was determined by using a polyphasic approach. Phylogenetic analyses based on 16S rRNA gene sequence analysis showed that the organism formed a distinct clade within the radiation of the genus . The chemotaxonomic properties supported the assignment of the isolate to the genus . High levels of 16S rRNA gene sequence similarity were found with (98.2 %), (97.5 %) and (97.1 %). DNA–DNA relatedness data, together with phenotypic differences, clearly distinguished the isolate from its closest relative . Based on the phenotypic and genotypic evidence, it is suggested that the organism be assigned as representing a novel species of the genus for which the name sp. nov. is proposed. The type strain is RP-AC36 (=NRRL B-24662=DSM 45180).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.006577-0
2009-06-01
2020-01-22
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/59/6/1401.html?itemId=/content/journal/ijsem/10.1099/ijs.0.006577-0&mimeType=html&fmt=ahah

References

  1. Cashion, P., Holder-Franklin, M. A., McCully, J. & Franklin, M. ( 1977; ). A rapid method of base ratio determination of bacterial DNA. Anal Biochem 81, 461–466.[CrossRef]
    [Google Scholar]
  2. De Ley, J., Cattoir, H. & Reynaerts, A. ( 1970; ). The quantitative measurement of DNA hybridisation from renaturation rates. Eur J Biochem 12, 133–142.[CrossRef]
    [Google Scholar]
  3. Felsenstein, J. ( 1981; ). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef]
    [Google Scholar]
  4. Felsenstein, J. ( 1993; ). phylip (phylogeny inference package), version 3.51. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  5. Fitch, W. M. ( 1971; ). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20, 406–416.[CrossRef]
    [Google Scholar]
  6. Groth, I., Tan, G. Y. A., González, J. M., Laiz, L., Carlsohn, M. R., Schütze, B., Wink, J. & Goodfellow, M. ( 2007; ). Amycolatopsis nigrescens sp. nov., an actinomycete isolated from a Roman catacomb. Int J Syst Evol Microbiol 57, 513–519.[CrossRef]
    [Google Scholar]
  7. Huß, V. A. R., Festl, H. & Schleifer, K. H. ( 1983; ). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4, 184–192.[CrossRef]
    [Google Scholar]
  8. Jukes, T. H. & Cantor, C. R. ( 1969; ). Evolution of protein molecules. In Mammalian Protein Metabolism, vol. 3, pp. 21–132. Edited by H. N. Munro. New York: Academic Press.
  9. Kim, S. B. & Goodfellow, M. ( 1999; ). Reclassification of Amycolatopsis rugosa Lechevalier et al. 1986 as Prauserella rugosa gen. nov., comb. nov. Int J Syst Bacteriol 49, 507–512.[CrossRef]
    [Google Scholar]
  10. Kroppenstedt, R. M. ( 1985; ). Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Chemical Methods in Bacterial Systematics (Society for Applied Bacteriology Technical Series vol. 20), pp. 173–199. Edited by M. Goodfellow & D. E. Minnikin. New York: Academic Press.
  11. Lechevalier, M. P., Prauser, H., Labeda, D. P. & Ruan, J.-S. ( 1986; ). Two new genera of nocardioform actinomycetes: Amycolata gen. nov. and Amycolatopsis gen. nov. Int J Syst Bacteriol 36, 29–37.[CrossRef]
    [Google Scholar]
  12. Lee, S. D. ( 2006; ). Amycolatopsis jejuensis sp. nov. and Amycolatopsis halotolerans sp. nov., novel actinomycetes isolated from a natural cave. Int J Syst Evol Microbiol 56, 549–553.[CrossRef]
    [Google Scholar]
  13. Lee, S. D. & Hah, Y. C. ( 2001; ). Amycolatopsis albidoflavus sp. nov. Int J Syst Evol Microbiol 51, 645–650.
    [Google Scholar]
  14. 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.[CrossRef]
    [Google Scholar]
  15. Lee, S. D., Kinkel, L. L. & Samac, D. A. ( 2006; ). Amycolatopsis minnesotensis sp. nov., isolated from a prairie soil. Int J Syst Evol Microbiol 56, 265–269.[CrossRef]
    [Google Scholar]
  16. 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]
  17. Minnikin, D. E., Alshamaony, L. & Goodfellow, M. ( 1975; ). Differentiation of Mycobacterium, Nocardia, and related taxa by thin layer chromatographic analysis of whole-cell methanolysates. J Gen Microbiol 88, 200–204.[CrossRef]
    [Google Scholar]
  18. 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]
  19. 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 bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2, 233–241.[CrossRef]
    [Google Scholar]
  20. Nonomura, H. & Ohara, Y. ( 1969; ). Distribution of actinomycetes in soil. VI. A culture method effective for both preferential isolation and enumeration of Microbispora and Streptosporangium strains in soil (Part 1). J Ferment Technol 47, 463–469.
    [Google Scholar]
  21. Prauser, H. & Bergholz, M. ( 1974; ). Taxonomy of actinomycetes and screening for antibiotic substances. Postepy Hig Med Dosw 28, 441–457.
    [Google Scholar]
  22. Saddler, G. S., Tavecchia, P., Lociuro, S., Zanol, M., Colombo, L. & Selva, E. ( 1991; ). Analysis of madurose and other actinomycete whole cell sugars by gas chromatography. J Microbiol Methods 14, 185–191.[CrossRef]
    [Google Scholar]
  23. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  24. Shirling, E. B. & Gottlieb, D. ( 1966; ). Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16, 313–340.[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. Tan, G. Y. A., Ward, A. C. & Goodfellow, M. ( 2006; ). Exploration of Amycolatopsis diversity in soil using genus-specific primers and novel selective media. Syst Appl Microbiol 29, 557–569.[CrossRef]
    [Google Scholar]
  27. 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]
  28. 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]
  29. Yassin, A. F., Haggenel, B., Budzikiewicz, H. & Schaal, K. P. ( 1993; ). Fatty acid and polar lipid composition of the genus Amycolatopsis: application of fast atom bombardment-mass spectrometry to structure analysis of underivatized phospholipids. Int J Syst Bacteriol 43, 414–420.[CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.006577-0
Loading
/content/journal/ijsem/10.1099/ijs.0.006577-0
Loading

Data & Media loading...

Supplements

Phospholipid profile of cells of strain RP-AC36 ( sp. nov.). [PDF](30 KB)

PDF

Fatty acid compositions of strain RP-AC36 and its phylogenetic neighbours. [PDF](20 KB)

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