1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 62, Issue Pt_8

sp. nov., isolated from soil Free

Abstract

A novel actinobacterium, strain A8036, isolated from soil, was investigated by using a polyphasic taxonomic approach. The organism formed extensively branched substrate hyphae that generated spiral chains of spores with irregular surfaces. The cell wall contained -diaminopimelic acid (type III) and cell-wall sugars were glucose, madurose, mannose and ribose. The predominant menaquinones were MK-9(H) and MK-9(H). The phospholipids were diphosphatidylglycerol, phosphatidylinositol and phosphatidylinositol mannosides. The major cellular fatty acids were iso-C, C 9, C, C and 10-methyl C. Based on 16S rRNA gene sequence analysis, the closest phylogenetic neighbours of strain A8036 were DSM 44715 (99.23 % similarity), DSM 45347 (98.9 %) and DSM 45346 (98.3 %). However, DNA–DNA relatedness and phenotypic data demonstrated that strain A8036 could be clearly distinguished from the type strains of all closely related species. Strain A8036 is therefore considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is A8036 ( = DSM 45508 = KCTC 19868).

  • Published Online:
Funding
This study was supported by the:
  • Ondokuz Mayis University (OMU) (Award PYO. FEN. 1901.09.003)
© 2012 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.036145-0
2012-08-01
2024-04-23
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/62/8/2011.html?itemId=/content/journal/ijsem/10.1099/ijs.0.036145-0&mimeType=html&fmt=ahah

References

  1. Ara I., Matsumoto A., Bakir M. A., Kudo T., Omura S., Takahashi Y. 2008; Actinomadura bangladeshensis sp. nov. and Actinomadura chokoriensis sp. nov.. Int J Syst Evol Microbiol 58:1653–1659 [View Article][PubMed]
     [Google Scholar]
  2. Athalye M., Goodfellow M., Lacey J., White R. P. 1985; Numerical classification of Actinomadura and Nocardiopsis . Int J Syst Bacteriol 35:86–98 [View Article]
     [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 [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. Chun J., Lee J.-H., Jung Y., Kim M., Kim S., Kim B. K., Lim Y. W. 2007; EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 57:2259–2261 [View Article][PubMed]
     [Google Scholar]
  6. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230[PubMed] [CrossRef]
     [Google Scholar]
  7. Cook A. E., le Roes M., Meyers P. R. 2005; Actinomadura napierensis sp. nov., isolated from soil in South Africa. Int J Syst Evol Microbiol 55:703–706 [View Article][PubMed]
     [Google Scholar]
  8. 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]
  9. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [View Article][PubMed]
     [Google Scholar]
  10. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
     [Google Scholar]
  11. Felsenstein J. 1993 phylip (phylogeny inference package), version 3.5c. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  12. 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]
  13. Gauze G. F., Preobrazhenskaya T. P., Kudrina E. S., Blinov N. O., Ryabova I. D., Sveshnikova M. A. 1957 Problems of Classification of Actinomycetes-Antagonists Moscow: Government Publishing House of Medical Literature;
     [Google Scholar]
  14. Gonzalez J. M., Saiz-Jimenez C. 2005; A simple fluorimetric method for the estimation of DNA-DNA relatedness between closely related microorganisms by thermal denaturation temperatures. Extremophiles 9:75–79 [View Article][PubMed]
     [Google Scholar]
  15. Gordon R. E., Mihm J. M. 1962; Identification of Nocardia caviae (Erikson) nov. comb.. Ann N Y Acad Sci 98:628–636 [View Article]
     [Google Scholar]
  16. 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]
     [Google Scholar]
  17. Jones K. L. 1949; Fresh isolates of actinomycetes in which the presence of sporogenous aerial mycelia is a fluctuating characteristic. J Bacteriol 57:141–145
     [Google Scholar]
  18. Jukes T. H., Cantor C. R. 1969; Evolution of protein molecules. In Mammalian Protein Metabolism vol. 3 pp. 21–132 Edited by Munro H. N. New York: Academic Press;
     [Google Scholar]
  19. 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]
  20. 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]
  21. 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]
  22. Kroppenstedt R. M., Goodfellow M. 1991; The family Thermomonosporaceae . In The Prokaryotes, 2nd edn. pp. 1085–1114 Edited by Balows A., Trüper H. G., Dworkin M., Harder W., Schleifer K. H. New York: Springer;
     [Google Scholar]
  23. Kroppenstedt R. M., Goodfellow M. 2006; The family Thermomonosporaceae: Actinocorallia, Actinomadura, Spirillispora and Thermomonospora . In The Prokaryotes, Archaea and Bacteria: Firmicutes, Actinomycetes, 3rd edn. vol. 3 pp. 682–724 Edited by Dworkin M., Falkow S., Schleifer K. H., Stackebrandt E. New York: Springer; [View Article]
     [Google Scholar]
  24. Kroppenstedt R. M., Stackebrandt E., Goodfellow M. 1990; Taxonomic revision of the actinomycete genera Actinomadura and Microtetraspora . Syst Appl Microbiol 13:148–160 [View Article]
     [Google Scholar]
  25. Kumar S., Tamura K., Nei M. 2004; mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5:150–163 [View Article][PubMed]
     [Google Scholar]
  26. le Roes M., Meyers P. R. 2007; Actinomadura rudentiformis sp. nov., isolated from soil. Int J Syst Evol Microbiol 57:45–50 [View Article][PubMed]
     [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. Lechevalier M. P., Stern A. E., Lechevalier H. A. 1981; Phospholipids in the taxonomy of actinomycetes. Zentralbl Bakteriol Hyg Abt 1:Suppl. 11111–116
     [Google Scholar]
  29. Lee S. D., Jeong H. S. 2006; Actinomadura hallensis sp. nov., a novel actinomycete isolated from Mt. Halla in Korea. Int J Syst Evol Microbiol 56:259–264 [View Article][PubMed]
     [Google Scholar]
  30. 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]
  31. Miyadoh S., Miyara T. 2001; Family Thermomonosporaceae . In Identification Manual of Actinomycetes pp. 281–291 Edited by The Society for Actinomycetes, Japan Tokyo: Business Center for Academic Societies;
     [Google Scholar]
  32. Promnuan Y., Kudo T., Chantawannakul P. 2009; Actinomycetes isolated from beehives in Thailand. World J Microbiol Biotechnol 25:1685–1689 [View Article]
     [Google Scholar]
  33. Qin S., Zhao G. Z., Li J., Zhu W. Y., Xu L. H., Li W. J. 2009; Actinomadura flavalba sp. nov., an endophytic actinomycete isolated from leaves of Maytenus austroyunnanensis . Int J Syst Evol Microbiol 59:2453–2457 [View Article][PubMed]
     [Google Scholar]
  34. Quintana E. T., Trujillo M. E., Goodfellow M. 2003; Actinomadura mexicana sp. nov. and Actinomadura meyerii sp. nov., two novel soil sporoactinomycetes. Syst Appl Microbiol 26:511–517 [View Article][PubMed]
     [Google Scholar]
  35. 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]
  36. Sasser M. 1990; Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.;
  37. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [View Article]
     [Google Scholar]
  38. Sierra G. 1957; A simple method for the detection of lipolytic activity of micro-organisms and some observations on the influence of the contact between cells and fatty substrates. Antonie van Leeuwenhoek 23:15–22 [View Article][PubMed]
     [Google Scholar]
  39. 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]
  40. 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]
  41. Trujillo M. E., Goodfellow M. 1997; Polyphasic taxonomic study of clinically significant actinomadurae including the description of Actinomadura latina sp. nov.. Zentralbl Bakteriol 285:212–233 [View Article][PubMed]
     [Google Scholar]
  42. Trujillo M. E., Goodfellow M. 2003; Numerical phenetic classification of clinically significant aerobic sporoactinomycetes and related organisms. Antonie van Leeuwenhoek 84:39–68 [View Article][PubMed]
     [Google Scholar]
  43. Wang Y. X., Zhi X. Y., Chen H. H., Zhang Y. Q., Tang S. K., Jiang C. L., Xu L. H., Li W. J. 2007; Actinomadura alba sp. nov., isolated from soil in Yunnan, China. Int J Syst Evol Microbiol 57:1735–1739 [View Article][PubMed]
     [Google Scholar]
  44. 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]
  45. 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]
  46. Yassin A. F., Spröer C., Siering C., Klenk H.-P. 2010; Actinomadura sputi sp. nov., isolated from the sputum of a patient with pulmonary infection. Int J Syst Evol Microbiol 60:149–153 [View Article][PubMed]
     [Google Scholar]
  47. Zhang Z., Kudo T., Nakajima Y., Wang Y. 2001; Clarification of the relationship between the members of the family Thermomonosporaceae on the basis of 16S rDNA, 16S–23S rRNA internal transcribed spacer and 23S rDNA sequences and chemotaxonomic analyses. Int J Syst Evol Microbiol 51:373–383[PubMed]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.036145-0
Loading
Actinomadura geliboluensis sp. nov., isolated from soil
Int J Syst Evol Microbiol 62, 2011 (2012); https://doi.org/10.1099/ijs.0.036145-0
/content/journal/ijsem/10.1099/ijs.0.036145-0
/content/journal/ijsem/10.1099/ijs.0.036145-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

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