1887

International Journal of Systematic and Evolutionary Microbiology

Volume 63, Issue 2

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

Abstract

An actinomycete, designated SA181, was isolated from Saharan soil in the Hoggar region (south Algeria) and was characterized taxonomically by using a polyphasic approach. The morphological and chemotaxonomic characteristics of the isolate were consistent with the genus , and 16S rRNA gene sequence analysis confirmed that strain SA181 was a novel member of the genus . DNA–DNA hybridization values between strain SA181 and its closest phylogenetic neighbours, the type strains of , and , were clearly below the 70 % threshold. The genotypic and phenotypic data showed that the isolate represents a novel species of the genus , for which the name sp. nov. is proposed, with the type strain SA181 ( = DSM 45457  = CCUG 60214).

  • Published Online:
© 2013 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.039099-0
2013-02-01
2019-12-07
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/63/2/549.html?itemId=/content/journal/ijsem/10.1099/ijs.0.039099-0&mimeType=html&fmt=ahah

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. 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]
  3. 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]
  4. Felsenstein J. . ( 1981; ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17:, 368––376. [CrossRef] [PubMed]
    [Google Scholar]
  5. Felsenstein J. . ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39:, 783––791. [CrossRef]
    [Google Scholar]
  6. Fitch W. M. . ( 1977; ). On the problem of discovering the most parsimonious tree. . Am Nat 111:, 223––257. [CrossRef]
    [Google Scholar]
  7. 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. [CrossRef]
    [Google Scholar]
  8. 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. [CrossRef]
    [Google Scholar]
  9. 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]
  10. 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;.
     [Google Scholar]
  11. 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]
  12. 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]
  13. 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]
  14. 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. [CrossRef]
    [Google Scholar]
  15. 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]
  16. Labeda D. P. . ( 2001; ). Crossiella gen. nov., a new genus related to Streptoalloteichus . . Int J Syst Evol Microbiol 51:, 1575––1579.[PubMed] [CrossRef]
    [Google Scholar]
  17. Labeda D. P. , Kroppenstedt R. M. . ( 2000; ). Phylogenetic analysis of Saccharothrix and related taxa: proposal for Actinosynnemataceae fam. nov.. Int J Syst Evol Microbiol 50:, 331––336. [CrossRef] [PubMed]
    [Google Scholar]
  18. Labeda D. P. , Kroppenstedt R. M. . ( 2006; ). Goodfellowia gen. nov., a new genus of the Pseudonocardineae related to Actinoalloteichus, containing Goodfellowia coeruleoviolacea gen. nov., comb. nov.. Int J Syst Evol Microbiol 56:, 1203––1207. [CrossRef] [PubMed]
    [Google Scholar]
  19. Labeda D. P. , Kroppenstedt R. M. . ( 2007; ). Proposal of Umezawaea gen. nov., a new genus of the Actinosynnemataceae related to Saccharothrix, and transfer of Saccharothrix tangerinus Kinoshita et al. 2000 as Umezawaea tangerina gen. nov., comb. nov.. Int J Syst Evol Microbiol 57:, 2758––2761. [CrossRef] [PubMed]
    [Google Scholar]
  20. Labeda D. P. , Lechevalier M. P. . ( 1989; ). Amendment of the genus Saccharothrix Labeda et al. 1984 and descriptions of Saccharothrix espanaensis sp. nov., Saccharothrix cryophilis sp. nov., and Saccharothrix mutabilis comb. nov.. Int J Syst Bacteriol 39:, 420––423. [CrossRef]
    [Google Scholar]
  21. Labeda D. P. , Testa R. T. , Lechevalier M. P. , Lechevalier H. A. . ( 1984; ). Saccharothrix: a new genus of the Actinomycetales related to Nocardiopsis . . Int J Syst Bacteriol 34:, 426––431. [CrossRef]
    [Google Scholar]
  22. Labeda D. P. , Hatano K. , Kroppenstedt R. M. , Tamura T. . ( 2001; ). Revival of the genus Lentzea and proposal for Lechevalieria gen. nov.. Int J Syst Evol Microbiol 51:, 1045––1050. [CrossRef] [PubMed]
    [Google Scholar]
  23. 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. [CrossRef]
    [Google Scholar]
  24. 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]
  25. 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. [CrossRef]
    [Google Scholar]
  26. 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. [CrossRef]
    [Google Scholar]
  27. 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]
  28. 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. [CrossRef] [PubMed]
    [Google Scholar]
  29. 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]
  30. Sasser M. . ( 1990; ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. . Newark, DE:: MIDI Inc.;
  31. Shirling E. B. , Gottlieb D. . ( 1966; ). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol 16:, 313––340. [CrossRef]
    [Google Scholar]
  32. Stackebrandt E. , Kroppenstedt R. M. , Jahnke K. D. , Kemmerling C. , Qurther H. . ( 1994; ). Transfer of Streptosporangium viridogriseum (Okuda et al., 1966), Streptosporangium viridogriseum subsp. kofuensis (Nonomura, Ohara, 1969), Streptosporangium albidum (Furumal et al., 1968) to Kutzneria gen. nov. as Kutzneria viridogrisea comb. nov., Kutzneria kofuensis comb. nov., Kutzneria albida comb. nov., respectively, and Emendation of the genus Streptosporangium . . Int J Syst Bacteriol 44:, 265––269. [CrossRef]
    [Google Scholar]
  33. 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]
  34. 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]
  35. Waksman S. A. . ( 1961; ). The Actinomycetes, Classification, Identification, Descriptions of Genera and Species, vol. 2. Baltimore:: Williams & Wilkins;.
     [Google Scholar]
  36. 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]
  37. 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––2492. Edited by Williams S. T. , Sharpe M. E. , Holt J. G. . . Baltimore:: Williams & Wilkins;.
     [Google Scholar]
  38. Yan X. , Huang L. L. , Tu X. , Gao X. N. , Kang Z. S. . ( 2012; ). Saccharothrix yanglingensis sp. nov., an antagonistic endophytic actinomycete isolated from cucumber plant. . Antonie van Leeuwenhoek 101:, 141––146. [CrossRef] [PubMed]
    [Google Scholar]
  39. Yassin A. F. , Rainey F. A. , Brzezinka H. , Jahnke K. D. , Weissbrodt H. , Budzikiewicz H. , Stackebrandt E. , Schaal K. P. . ( 1995; ). Lentzea gen. nov., a new genus of the order Actinomycetales . . Int J Syst Bacteriol 45:, 357––363. [CrossRef] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.039099-0
Loading
Saccharothrix hoggarensis sp. nov., an actinomycete isolated from Saharan soil
Int J Syst Evol Microbiol 63, 549 (2013); https://doi.org/10.1099/ijs.0.039099-0
/content/journal/ijsem/10.1099/ijs.0.039099-0
/content/journal/ijsem/10.1099/ijs.0.039099-0
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