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INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 66, Issue 7

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

Abstract

During our investigations of new actinobacterial taxa, a novel actinobacterial strain, designated MB20, was isolated from a Saharan soil sample, collected in the Mzab region (Ghardaïa province, southern Algeria). In order to reveal its taxonomic position, the novel strain was characterized following a polyphasic taxonomic approach. It was noticed that strain MB20 produced white, branched and fragmented substrate mycelium with no aerial mycelium on most of the media tested. Chemotaxonomic and phylogenetic studies clearly demonstrated that strain MB20 belonged to the family and was closely related to the genus . Cell-wall hydrolysates contained -diaminopimelic acid but not glycine, and whole-cell hydrolysates contained galactose, glucose and ribose. The diagnostic phospholipid was phosphatidylethanolamine. Mycolic acids were not detected while the predominant fatty acid was found to be iso-branched hexadecanoate (iso-C). The major menaquinone was MK-9(H). Results of the 16S rRNA gene sequence comparison revealed that strain MB20shared the highest degree of similarity with DSM 45828 (98.5 %), DSM 45659 (98.0 %) and DSM 45660 (97.5 %). However, DNA–DNA hybridization studies showed only 32.9 % similarity with , 23.7 % similarity with and 17.9 % similarity with . On the basis of phenotypic characteristics, 16S rRNA gene sequence comparisons and DNA–DNA hybridization, strain MB20 was revealed to be a representative of a novel species of the genus , for which the name sp. nov. (type strain MB20 =DSM 46746 =CECT 8960) is proposed.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): Actinobacterium , Actinophytocola , Actinophytocola algeriensis sp. nov. , bacterial diversity , Polyphasic taxonomy and Saharan soil
© 2016 IUMS
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2016-07-01
2024-04-16
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References

  1. Ara I., Tsetseg B., Daram D., Suto M., Ando K. 2011; Actinophytocola burenkhanensis sp. nov., isolated from Mongolian soil. Int J Syst Evol Microbiol 61:1033–1038 [View Article][PubMed]
     [Google Scholar]
  2. 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]
  3. 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]
  4. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [View Article][PubMed]
     [Google Scholar]
  5. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
     [Google Scholar]
  6. Fitch W. M. 1977; On the problem of discovering the most parsimonious tree. Am Nat 111:223–257 [View Article]
     [Google Scholar]
  7. Goodfellow M. 1971; Numerical taxonomy of some nocardioform bacteria. J Gen Microbiol 69:33–90 [View Article][PubMed]
     [Google Scholar]
  8. 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]
  9. 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]
  10. Huss V. A., 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]
  11. Indananda C., Matsumoto A., Inahashi Y., Takahashi Y., Duangmal K., Thamchaipenet A. 2010; Actinophytocola oryzae gen. nov., sp. nov., isolated from the roots of Thai glutinous rice plants, a new member of the family Pseudonocardiaceae . Int J Syst Evol Microbiol 60:1141–1146 [View Article][PubMed]
     [Google Scholar]
  12. Jukes T. H., Cantor C. R. 1969; Evolution of protein molecules. In Mammalian Protein Metabolism pp. 21–132 Edited by Munro H. N. New York: Academic Press; [CrossRef]
     [Google Scholar]
  13. 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; [CrossRef]
     [Google Scholar]
  14. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. et al. 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]
  15. 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]
  16. Kovács N. 1956; Identification of Pseudomonas pyocyanea by the oxidase reaction. Nature 178:703–704 [View Article][PubMed]
     [Google Scholar]
  17. Kroppenstedt R. M. 1982; Separationof bacterial menaquinones by HPLC using reverse phase (RP18) and asilver loaded ion exchanger as stationary phases. J Liq Chromatogr 5:2359–2367 [CrossRef]
     [Google Scholar]
  18. Kroppenstedt R. M. 1985; Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Chemical Methods in Bacterial Systematics , pp. 173–179 Edited by Goodfellow M., Minnikin D. E. London: Academic Press;
     [Google Scholar]
  19. Lechevalier M. P., Lechevalier H. A. 1970; Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20:435–444 [View Article]
     [Google Scholar]
  20. Lechevalier M. P., De Bievre C., Lechevalier H. A. 1977; Chemicalcomposition as a criterion in the classification of aerobicactinomycetes. Int J Syst Bacteriol 5:249–260
     [Google Scholar]
  21. Liu D., Coloe S., Baird R., Pederson J. 2000; Rapid mini-preparation of fungal DNA for PCR. J Clin Microbiol 38: 471[PubMed]
     [Google Scholar]
  22. Marchal N., Bourdon J. L., Richard C. L. 1987 Les milieux de culture pour l’isolement et l’identification biochimique des bactéries Paris: Doin Press;
     [Google Scholar]
  23. 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]
  24. 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 [View Article]
     [Google Scholar]
  25. 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 Meth 2:233–241 [View Article]
     [Google Scholar]
  26. Otoguro M., Yamamura H., Tamura T., Irzaldi R., Ratnakomala S., Ridwan R., Kartina G., Triana E., Nurkanto A. et al. 2011; Actinophytocola timorensis sp. nov. and Actinophytocola corallina sp. nov., isolated from soil. Int J Syst Evol Microbiol 61:834–838 [View Article][PubMed]
     [Google Scholar]
  27. 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]
  28. 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]
  29. Sasser M. 1990 Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101 Newark, DE: MIDI Inc;
     [Google Scholar]
  30. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. IntJ Syst Bacteriol 16:313–340 [View Article]
     [Google Scholar]
  31. Sun H. M., Zhang T., Yu L. Y., Lu X. X., Mou X. Z., Zhang Y. Q. 2014; Actinophytocola gilvus sp. nov., isolated from desert soil crusts, and emended descriptionof the genus Actinophytocola Indananda et al. 2010. IntJ Syst Evol Microbiol 64:3120–3125 [View Article]
     [Google Scholar]
  32. 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 and Evol 28:2731–2739 [View Article]
     [Google Scholar]
  33. 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]
  34. Waksman S. A. 1961 The Actinomycetes, Classification, Identification, Descriptions of Genera and Species vol. 2 Baltimore: Williams & Wilkins;
     [Google Scholar]
  35. 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. et al. 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]
  36. Xiaoxuan G., Danheng Q., Jisheng R., Ying H. 2011; Actinophytocola xinjiangensis sp. nov., isolated from virgin forest soil. Int J Syst Evol Microbiol 61:2928–2932 [View Article][PubMed]
     [Google Scholar]
  37. Zhang D. F., Jiang Z., Zhang X. M., Yang L. L., Tian X. P., Long L. J., Zhang S., Li W. J. 2014; Actinophytocola sediminis sp. nov., an actinomycete isolated from a marine sediment. Int J Syst Evol Microbiol 64:2834–2840 [View Article][PubMed]
     [Google Scholar]
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Actinophytocola algeriensis sp. nov., an actinobacterium isolated from Saharan soil
Int J Syst Evol Microbiol 66, 2760 (2016); https://doi.org/10.1099/ijsem.0.001136
/content/journal/ijsem/10.1099/ijsem.0.001136
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