sp. nov., an actinobacterium isolated from Saharan soil Free

Abstract

A novel actinobacterium, designated strain SG20, was isolated from a Saharan soil sample collected from Béni-isguen (Mzab), Ghardaïa province, southern Algeria. The micro-organism developed small roundish sporangia on aerial mycelium that were sessile or carried by very short sporangiophores. The cell-wall peptidoglycan contained -diaminopimelic acid and the whole-cell sugars comprised glucose, ribose and mannose, but madurose was not detected. The predominant menaquinones were MK-9(H), MK-9(H) and MK-9(H). The major fatty acids were iso-C and C. The phospholipids detected were diphosphatidylglycerol, phosphatidylinositol, phosphatidylethanolamine and unknown lipids. The phenotypic and chemotaxonomic characteristics of the novel strain resembled those of recognized members of the genus . Moreover, phylogenetic analysis based on a 16S rRNA gene sequence generated from the strain identified its closest relative as BCC 53154 (98.5 % similarity), which produces single spores on aerial mycelium, but no sporangia. In hybridization experiments, the DNA–DNA relatedness values recorded between strain SG20 and DSM 46822 fell well below 70 %. On the basis of phenotypic and genotypic data, strain SG20 can be distinguished as representing a novel species of the genus , for which the name sp. nov. is proposed. The type strain is SG20 ( = DSM 46743 = CECT 8840).

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2016-03-01
2024-03-29
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References

  1. Becker B., Lechevalier M. P., Gordon R. E., Lechevalier H. A. 1964; Rapid differentiation between Nocardia and Streptomyces by paper chromatography of whole-cell hydrolysates. Appl Microbiol 12:421–423[PubMed]
    [Google Scholar]
  2. Boudjella H., Bouti K., Zitouni A., Mathieu F., Lebrihi A., Sabaou N. 2006; Taxonomy and chemical characterization of antibiotics of Streptosporangium Sg 10 isolated from a Saharan soil. Microbiol Res 161:288–298 [View Article][PubMed]
    [Google Scholar]
  3. Boudjella H., Bouti K., Zitouni A., Mathieu F., Lebrihi A., Sabaou N. 2007; Isolation and partial characterization of pigment-like antibiotics produced by a new strain of Streptosporangium isolated from an Algerian soil. J Appl Microbiol 103:228–236 [View Article][PubMed]
    [Google Scholar]
  4. Boudjella H., Zitouni A., Coppel Y., Mathieu F., Monje M. C., Sabaou N., Lebrihi A. 2010; Antibiotic R2, a new angucyclinone compound from Streptosporangium sp. Sg3. J Antibiot (Tokyo) 63:709–711[PubMed]
    [Google Scholar]
  5. 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 [View Article][PubMed]
    [Google Scholar]
  6. Couch J. N. 1955; A new genus and family of the Actinomycetales, with a revision of the genus Actinoplanes . J Elisha Mitchell Sci Soc 71:148–155
    [Google Scholar]
  7. De Ley J., Cattoir H., Reynaerts A. 1970; The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12:133–142 [View Article][PubMed]
    [Google Scholar]
  8. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [View Article][PubMed]
    [Google Scholar]
  9. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [Google Scholar]
  10. Fitch W. M. 1977; On the problem of discovering the most parsimonious tree. Am Nat 111:223–257 [View Article]
    [Google Scholar]
  11. Goodfellow M. 1971; Numerical taxonomy of some nocardioform bacteria. J Gen Microbiol 69:33–80 [View Article][PubMed]
    [Google Scholar]
  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 [View Article]
    [Google Scholar]
  13. Hacène H., Boudjellal F., Lefebvre G. 1998; AH7, a non-polyenic antifungal antibiotic produced by a new strain of Streptosporangium roseum . Microbios 96:103–109[PubMed]
    [Google Scholar]
  14. Hayakawa M., Nonomura H. 1987; Humic acid-vitamin agar, a new medium for the selective isolation of soil actinomycetes. J Ferment Technol 65:501–509 [View Article]
    [Google Scholar]
  15. Hayakawa M., Sadakata T., Kajiura T., Nonomura H. 1991; New methods for the highly selective isolation of Micromonospora and Microbispora from soil. J Ferment Bioeng 72:320–326 [View Article]
    [Google Scholar]
  16. He H., Zhang X., Wang H., Liu C., Wang S., Zhao J., Yuan J., Wang X., Xiang W. 2014; Streptosporangium nanhuense sp. nov., a novel actinomycete isolated from soil. Antonie van Leeuwenhoek 105:1025–1031 [View Article][PubMed]
    [Google Scholar]
  17. 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 [View Article][PubMed]
    [Google Scholar]
  18. Intra B., Matsumoto A., Inahashi Y., Ōmura S., Panbangred W., Takahashi Y. 2014; Streptosporangium jomthongense sp. nov., an actinomycete isolated from rhizospheric soil and emendation of the genus Streptosporangium . Int J Syst Evol Microbiol 64:2400–2406 [View Article][PubMed]
    [Google Scholar]
  19. Jukes T. H., Cantor C. R. 1969; Evolution of protein molecules. In Mammalian Protein Metabolism pp 21–132Edited by Munro H. N. New York: Academic Press; [View Article]
    [Google Scholar]
  20. Kämpfer P., Glaeser S. P., Grün-Wollny I., Busse H. J. 2013; Streptosporangium sandarakinum sp. nov. Int J Syst Evol Microbiol 63:2484–2489 [View Article][PubMed]
    [Google Scholar]
  21. Kelly K. L., Judd D. B. 1976 Color. Universal Language and Dictionary of Names (National Bureau of Standards Special Publication 440) Washington, DC: US Department of Commerce; [View Article]
    [Google Scholar]
  22. 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 [View Article][PubMed]
    [Google Scholar]
  23. Kim M., Oh H. S., Park S. C., Chun J. 2014; Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 64:346–351 [View Article][PubMed]
    [Google Scholar]
  24. 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]
  25. Kroppenstedt R. M. 1982; Separation of bacterial menaquinones by HPLC using reverse phase (RP18) and a silver loaded ion exchanger as stationary phases. J Liq Chromatogr 5:2359–2367 [View Article]
    [Google Scholar]
  26. 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 173–179Edited by Goodfellow M., Minnikin D. E. London: Academic Press;
    [Google Scholar]
  27. 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 [View Article]
    [Google Scholar]
  28. Marchal N., Bourdon J. L., Richard C. L. 1987 Les milieux de culture pour l'isolement et l'identification biochimique des bactéries Paris: Doin;
    [Google Scholar]
  29. Meier-Kolthoff J. P., Göker M., Spröer C., Klenk H.-P. 2013; When should a DDH experiment be mandatory in microbial taxonomy?. Arch Microbiol 195:413–418 [View Article][PubMed]
    [Google Scholar]
  30. Minnikin D. E., Patel P. V., Alshamaony L., Goodfellow M. 1977; Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 27:104–117 [View Article]
    [Google Scholar]
  31. 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 [View Article]
    [Google Scholar]
  32. Quintana E., Goodfellow M. 2012; Genus I. Streptosporangium . In Bergey's Manual of Systematic Bacteriology, 2nd edn. vol. 5 pp 1811–1825Edited by Whitman W. B., Goodfellow M., Kampfer P., Busse H. J., Trujillo M. E., Ludwig W., Suzuki K., Parte A. New York: Springer;
    [Google Scholar]
  33. Rainey F. A., Ward-Rainey N., Kroppenstedt R. M., Stackebrandt E. 1996; The genus Nocardiopsis represents a phylogenetically coherent taxon and a distinct actinomycete lineage: proposal of Nocardiopsaceae fam. nov. Int J Syst Bacteriol 46:1088–1092 [View Article][PubMed]
    [Google Scholar]
  34. 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]
  35. Sasser M. 1990 Identification of bacteria by gas chromatography of cellular fatty acids MIDI Technical Note 101 Newark, DE: MIDI Inc;
    [Google Scholar]
  36. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [View Article]
    [Google Scholar]
  37. Stackebrandt E., Kroppenstedt R. M., Jahnke K. D., Kemmerling C., Gurtler H. et al. 1994; Transfer of Streptosporangium viridogriseum (Okuda et al. 1966). Streptosporangium viridogriseum subsp. kofuense (Nonomura and Ohara 1969), and Streptosporangium albidum (Furumai et al. 1968) to Kutzneria gen. nov. as Kutzneria viridogrisea comb. nov., Kutzneria kofuensis comb. nov., and Kutzneria albida comb. nov., respectively, and emendation of the genus Streptosporangium . Int J Syst Bacteriol 44:265–269 [View Article]
    [Google Scholar]
  38. 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 [View Article][PubMed]
    [Google Scholar]
  39. 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 [View Article][PubMed]
    [Google Scholar]
  40. 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 [View Article]
    [Google Scholar]
  41. Williams S. T., Goodfellow M., Alderson G. 1989; Genus Streptomyces Waksman and Henrici 1943, 339AL . In Bergey's Manual of Systematic Bacteriology vol. 4 pp 2452–2492Edited by Williams S. T., Sharpe M. E., Holt J. G. Baltimore, MD: Williams & Wilkins;
    [Google Scholar]
  42. Zhang L.-P., Zhang L.-M., Zhang X.-M. 2009; Streptosporangium canum sp. nov., isolated from soil. Int J Syst Evol Microbiol 59:1715–1719 [View Article][PubMed]
    [Google Scholar]
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