1887

Abstract

A spore-forming streptomycete designated strain SUK12 was isolated from a Malaysian ethnomedicinal plant. Its taxonomic position, established using a polyphasic approach, indicates that it is a novel species of the genus . Morphological and chemical characteristics of the strain were consistent with those of members of the genus . Analysis of the almost complete 16S rRNA gene sequence placed strain SUK12 in the genus where it formed a distinct phyletic line with recognized species of this genus. The strain exhibited highest sequence similarity to DSM 40340 (98.2 %) followed by NRRL B-3310 (98.1 %). The G+C content of the genomic DNA was 74 mol%. Chemotaxonomic data [MK-9(H) as the major menaquinone; -diaminopimelic acid as a component of cell-wall peptidoglycan; C, C, C and C as the major fatty acids; phospholipid type II] supported the affiliation of strain SUK12 to the genus . The results of the phylogenetic analysis and phenotypic data derived from this and previous studies allowed the genotypic and phenotypic differentiation of strain SUK12 from the related species of the genus . The DNA–DNA relatedness value between strain SUK12 and DSM 40340 is 18.85±4.55 %. Strain SUK12 produces phenazine-1-carboxylic acid, known as tubermycin B, an antibacterial agent. It is proposed, therefore, that strain SUK12 ( = DSM 42048 = NRRL B-24860) be classified in the genus as the type strain of sp. nov.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.047878-0
2013-10-01
2019-12-13
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/63/10/3733.html?itemId=/content/journal/ijsem/10.1099/ijs.0.047878-0&mimeType=html&fmt=ahah

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. [CrossRef][PubMed]
    [Google Scholar]
  2. Atlas R. M.. ( 1993;). Handbook of Microbiological Media. Edited by Parks L. C... Boca Raton:: CRC Press;.
    [Google Scholar]
  3. Cashion P., Holder-Franklin M. A., McCully J., Franklin M.. ( 1977;). A rapid method for the base ratio determination of bacterial DNA. . Anal Biochem 81:, 461–466. [CrossRef][PubMed]
    [Google Scholar]
  4. 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][PubMed]
    [Google Scholar]
  5. De Ley J., Cattoir H., Reynaerts A.. ( 1970;). The quantitative measurement of DNA hybridization from renaturation rates. . Eur J Biochem 12:, 133–142. [CrossRef][PubMed]
    [Google Scholar]
  6. Euzéby J. P.. ( 2012;). List of Bacterial Names with Standing in Nomenclature: a folder available on the Internet. . (Last full update: 3 June 2012). http://www.bacterio.cict.fr/.
    [Google Scholar]
  7. Felsenstein J.. ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17:, 368–376. [CrossRef][PubMed]
    [Google Scholar]
  8. Felsenstein J.. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39:, 783–791. [CrossRef]
    [Google Scholar]
  9. Fitch W. M.. ( 1971;). Toward defining the course of evolution: minimum change for a species tree topology. . Syst Zool 20:, 406–416. [CrossRef]
    [Google Scholar]
  10. 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. [CrossRef]
    [Google Scholar]
  11. 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][PubMed]
    [Google Scholar]
  12. Kämpfer P.. ( 2006;). The family Streptomycetaceae, part I: taxonomy. . In The Prokaryotes: a Handbook on the Biology of Bacteria, , 3rd edn., vol. 3, pp. 538–604. Edited by Dworkin M., Falkow S., Rosenberg E., Schleifer K. H., Stackebrandt E... New York:: Springer;.
    [Google Scholar]
  13. Kato S., Shindo K., Kawai H., Odagawa A., Matsuoka M., Mochizuki J.. ( 1993;). Pyrrolostatin, a novel lipid peroxidation inhibitor from Streptomyces chrestomyceticus. Taxonomy, fermentation, isolation, structure elucidation and biological properties. . J Antibiot (Tokyo) 46:, 892–899. [CrossRef][PubMed]
    [Google Scholar]
  14. Kelly K. L.. ( 1964;). Inter-Society Color Council-National Bureau of Standards 246 Color-Name Charts Illustrated With Centroid Colors. Washington, DC:: US Government Print Office;.
    [Google Scholar]
  15. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H.. & other authors ( 2012;). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62:, 716–721. [CrossRef][PubMed]
    [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][PubMed]
    [Google Scholar]
  17. Korn-Wendish F., Kutzner H. J.. ( 1992;). The family Streptomycetaceae. . In The Prokaryotes, pp. 921–995. Edited by Balows A., Trüper H. G., Dworkin M., Harder W., Schleifer K. H... New York:: Springer;.
    [Google Scholar]
  18. Labeda D. P.. ( 1992;). DNA–DNA hybridization in the systematics of Streptomyces. . Gene 115:, 249–253. [CrossRef][PubMed]
    [Google Scholar]
  19. 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]
  20. Macrae A.. ( 2000;). The use of 16S rDNA methods in soil microbial ecology. . Braz J Microbiol 31:, 77–82. [CrossRef]
    [Google Scholar]
  21. Mandel M., Marmur J.. ( 1968;). The use of ultraviolet absorbance-temperature profile for determining the guanine plus cytosine content of DNA. . Methods Enzymol 12B:, 195–206. [CrossRef]
    [Google Scholar]
  22. Minnikin D. E., O’Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal A., Parlett I. H.. ( 1984;). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. . J Microbiol Methods 2:, 233–241. [CrossRef]
    [Google Scholar]
  23. Mordarska H., Mordarski M., Goodfellow M.. ( 1972;). Chemotaxonomic characters and classification of some nocardioform bacteria. . J Gen Microbiol 71:, 77–86. [CrossRef][PubMed]
    [Google Scholar]
  24. Owen R. J., Pitcher D.. ( 1985;). Current methods for estimating DNA base composition and levels of DNA–DNA hybridization. . In Chemical Methods in Bacterial Systematics, pp. 67–93. Edited by Goodfellow M., Minnikin D. E... London:: Academic Press;.
    [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.[PubMed]
    [Google Scholar]
  26. Sasser M.. ( 2001;). Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids. MIDI Technical note 101. http://www.midi-inc.com
    [Google Scholar]
  27. Shirling E. B., Gottlieb D.. ( 1966;). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol 16:, 313–340. [CrossRef]
    [Google Scholar]
  28. Shirling E. B., Gottlieb D.. ( 1969;). Cooperative description of type cultures of Streptomyces. IV. Species description from second, third and fourth studies. . Int J Syst Bacteriol 19:, 391–512. [CrossRef]
    [Google Scholar]
  29. Shirling E. B., Gottlieb D.. ( 1972;). Cooperative description of type strains of Streptomyces. V. Additional descriptions. . Int J Syst Bacteriol 22:, 265–394. [CrossRef]
    [Google Scholar]
  30. Staneck J. L., Roberts G. D.. ( 1974;). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. . Appl Microbiol 28:, 226–231.[PubMed]
    [Google Scholar]
  31. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S.. ( 2011;). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. . Mol Biol Evol 28:, 2731–2739. [CrossRef][PubMed]
    [Google Scholar]
  32. 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][PubMed]
    [Google Scholar]
  33. Tresner H. D., Hayes J. A., Backus E. J.. ( 1968;). Differential tolerance of streptomycetes to sodium chloride as a taxonomic aid. . Appl Microbiol 16:, 1134–1136.[PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.047878-0
Loading
/content/journal/ijsem/10.1099/ijs.0.047878-0
Loading

Data & Media loading...

Supplements

Supplementary material 

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