1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 66, Issue 2

sp. nov., an actinomycete isolated from the rhizosphere of Free

Abstract

An actinomycete, strain D34, was isolated from a soil sample collected from the rhizosphere of at Yunwu Mountain in Ningxia, north-west China. Strain D34 showed highest 16S rRNA gene sequence similarity to DSM 44229 (99.0 %), NRRL B-16107 (98.7 %) and NRRL B-16296 (98.6 %). The strain contained -diaminopimelic acid, alanine, glycine and glutamic acid as major cell-wall amino acids. Mannose, rhamnose and galactose were the characteristic whole-cell sugars. The fatty acid profile consisted predominantly of iso-C, iso-C, iso-C, Cω6, anteiso-C and anteiso-C. The phospholipid profile included phosphatidylethanolamine (typical of phospholipid pattern type II). Furthermore, a combination of some physiological and biochemical properties and low DNA–DNA relatedness values indicated that strain D34 was differentiated from members of closely related species. On the basis of these phenotypic, genotypic and chemotaxonomic data, strain D34 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is D34 ( = JCM 30560 = ACCC19714).

  • Published Online:
© 2015 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.000827
2016-02-01
2024-04-16
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/66/2/1017.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.000827&mimeType=html&fmt=ahah

References

  1. Boubetra D., Zitouni A., Bouras N., Mathieu F., Lebrihi A., Schumann P., Spröer C., Klenk H. P., Sabaou N. 2013a; Saccharothrix hoggarensis sp. nov., an actinomycete isolated from Saharan soil. Int J Syst Evol Microbiol 63:549–553 [View Article][PubMed]
     [Google Scholar]
  2. Boubetra D., Zitouni A., Bouras N., Mathieu F., Lebrihi A., Schumann P., Spröer C., Klenk H. P., Sabaou N. 2013b; Saccharothrix saharensis sp. nov., an actinomycete isolated from Algerian Saharan soil. Int J Syst Evol Microbiol 63:3744–3749 [View Article][PubMed]
     [Google Scholar]
  3. Boubetra D., Zitouni A., Bouras N., Schumann P., Spröer C., Klenk H.-P., Sabaou N. 2015; Saccharothrix tamanrassetensis sp. nov., an actinomycete isolated from Saharan soil. Int J Syst Evol Microbiol 65:1316–1320 [View Article][PubMed]
     [Google Scholar]
  4. Chun J., Goodfellow M. 1995; A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences. Int J Syst Bacteriol 45:240–245 [View Article][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 [View Article][PubMed]
     [Google Scholar]
  6. Eguchi T., Takada N., Nakamura S., Tanaka T., Makino T., Oshima Y. 1993; Streptomyces bungoensis sp. nov. Int J Syst Bacteriol 43:794–798 [View Article]
     [Google Scholar]
  7. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
     [Google Scholar]
  8. Fitch W. M. 1971; Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416 [View Article]
     [Google Scholar]
  9. Goodfellow M. 1971; Numerical taxonomy of some nocardioform bacteria. J Gen Microbiol 69:33–80 [View Article][PubMed]
     [Google Scholar]
  10. Gordon R. E., Mihm J. M. 1962; The type species of the genus Nocardia . J Gen Microbiol 27:1–10 [View Article][PubMed]
     [Google Scholar]
  11. Kämpfer P., Kroppenstedt R. M. 1996; Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. Can J Microbiol 42:989–1005 [View Article]
     [Google Scholar]
  12. Kelly K. L. 1964 Inter-Society Color Council – National Bureau of Standards Color-Name Charts Illustrated With Centroid Colors Washington, DC: US Government Printing Office;
     [Google Scholar]
  13. 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]
  14. 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]
  15. Kumar S., Nei M., Dudley J., Tamura K. 2008; mega: a biologist-centric software for evolutionary analysis of DNA and protein sequences. Brief Bioinform 9:299–306 [View Article][PubMed]
     [Google Scholar]
  16. 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 [View Article][PubMed]
     [Google Scholar]
  17. 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 [View Article][PubMed]
     [Google Scholar]
  18. Labeda D., Lechevalier M. 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 [View Article]
     [Google Scholar]
  19. Labeda D., Testa R., Lechevalier M., Lechevalier H. 1984; Saccharothrix: a new genus of the Actinomycetales related to Nocardiopsis . Int J Syst Bacteriol 34:426–431 [View Article]
     [Google Scholar]
  20. 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 [View Article][PubMed]
     [Google Scholar]
  21. Lechevalier M. P., Lechevalier H. 1970; Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20:435–443 [View Article]
     [Google Scholar]
  22. Lechevalier H. A., Lechevalier M. P. 1980; The chemotaxonomy of actinomycetes. In Actinomycete Taxonomy (Special Publication no. 6), pp 277–284Edited by Dietz A., Thayer D. W. Arlington, VA: Society of Industrial Biology;
     [Google Scholar]
  23. Lin Y. B., Wang X. Y., Li H. F., Wang N. N., Wang H. X., Tang M., Wei G. H. 2011; Streptomyces zinciresistens sp. nov., a zinc-resistant actinomycete isolated from soil from a copper and zinc mine. Int J Syst Evol Microbiol 61:616–620 [View Article][PubMed]
     [Google Scholar]
  24. Liu C., Guan X., Wang S., Zhao J., Wang H., He H., Xiang W., Wang X. 2014; Saccharothrix carnea sp. nov., an actinobacterium isolated from soil. Int J Syst Evol Microbiol 64:4033–4037 [View Article][PubMed]
     [Google Scholar]
  25. Marmur J., Doty P. 1962; Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 5:109–118 [View Article][PubMed]
     [Google Scholar]
  26. Minnikin D., O'Donnell A., Goodfellow M., Alderson G., Athalye M., Schaal A., Parlett J. 1984; An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241 [View Article]
     [Google Scholar]
  27. Ren J., Li L., Wei B., Tang Y. L., Deng Z. X., Sun M., Hong K. 2013; Micromonospora wenchangensis sp. nov., isolated from mangrove soil. Int J Syst Evol Microbiol 63:2389–2395 [View Article][PubMed]
     [Google Scholar]
  28. Rzhetsky A., Nei M. 1993; Theoretical foundation of the minimum-evolution method of phylogenetic inference. Mol Biol Evol 10:1073–1095[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. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [View Article]
     [Google Scholar]
  31. 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]
  32. 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 [View Article][PubMed]
     [Google Scholar]
  33. Tsukamura M. 1966; Adansonian classification of mycobacteria. J Gen Microbiol 45:253–273 [View Article][PubMed]
     [Google Scholar]
  34. Wayne L., Brenner D., Colwell R., Grimont P., Kandler O., Krichevsky M., Moore L., Moore W., Murray R. 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]
  35. Williams S. T., Goodfellow M., Alderson G., Wellington E. M. H, Sneath P. H. A, Sackin M. J. 1983; Numerical classification of Streptomyces and related genera. J Gen Microbiol 129:1743–1813[PubMed]
     [Google Scholar]
  36. 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 [View Article][PubMed]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.000827
Loading
Saccharothrix stipae sp. nov., an actinomycete isolated from the rhizosphere of Stipa grandis
Int J Syst Evol Microbiol 66, 1017 (2016); https://doi.org/10.1099/ijsem.0.000827
/content/journal/ijsem/10.1099/ijsem.0.000827
/content/journal/ijsem/10.1099/ijsem.0.000827
Loading

Data & Media loading...

Supplements

Supplementary Data

PDF

Most cited Most Cited RSS feed

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