1887

Abstract

A novel actinomycete strain RY35-68, isolated from a peat swamp forest soil sample in Rayong Province, Thailand, was characterized using a polyphasic approach. The strain belonged to the genus based on morphological and chemotaxonomic characteristics. Cell-wall analysis revealed the presence of -diaminopimelic acid and -acetylmuramic acid in the peptidoglycan layer. The diagnostic sugar in whole-cell hydrolysates was identified as madurose. The predominant menaquinones were MK-9(H), MK-9(H) and MK-9(H). The major cellular fatty acids were C and iso-C The major polar lipids were diphosphatidylglycerol, phosphatidylinositol and phosphatidylinositol mannoside. The genomic DNA G+C content was 73.7 mol%. On the basis of 16S rRNA gene sequence similarity analysis, strain RY35-68 was closely related to the species JCM 6250 (97.5 %). The value of DNA–DNA relatedness between strain RY35-68 and JCM 6250 was 37.6–42.6 %. On the basis of its phenotypic characteristics and these results mentioned, this strain could be distinguished from the closely related type strain and represents a novel species of the genus , for which the name sp. nov. (type strain RY35-68 = JCM 19830 = TISTR 2211 = PCU 332) is proposed.

Funding
This study was supported by the:
  • , Ratchadaphiseksomphot Endowment Fund
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2015-03-01
2020-11-30
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References

  1. Alteras I., Abraham D., Ideses C., Segal R., Sandbank M. ( 1988 ). Mycetoma of the forearm due to Actinomadura madurae . . Mycopathologia 103, 5557. [CrossRef] [PubMed]
    [Google Scholar]
  2. Arai T. ( 1975 ). Culture Media for Actinomycetes. Tokyo, Japan:: The Society for Actinomycetes;.
    [Google Scholar]
  3. Cascio A., Mandraffino G., Cinquegrani M., Delfino D., Mandraffino R., Romeo O., Criseo G., Saitta A. ( 2011 ). Actinomadura pelletieri mycetoma–an atypical case with spine and abdominal wall involvement. . J Med Microbiol 60, 673676. [CrossRef] [PubMed]
    [Google Scholar]
  4. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. ( 1977 ). Distribution of menaquinones in actinomycetes and corynebacteria. . J Gen Microbiol 100, 221230. [CrossRef] [PubMed]
    [Google Scholar]
  5. Euzéby J. P. ( 2014 ). List of bacterial names with standing in nomenclature: a folder available on the Internet. [Last full update 2 January 2014]. . http://www.bacterio.net
  6. Ezaki T., Hashimoto Y., Yabuuchi E. ( 1989 ). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. . Int J Syst Bacteriol 39, 224229. [CrossRef]
    [Google Scholar]
  7. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368376. [CrossRef] [PubMed]
    [Google Scholar]
  8. Felsenstein J. ( 1983 ). Parsimony in systematics: biological and statistical issues. . Annu Rev Ecol Syst 14, 313333. [CrossRef]
    [Google Scholar]
  9. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783791. [CrossRef]
    [Google Scholar]
  10. 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, 5463. [CrossRef]
    [Google Scholar]
  11. Hayakawa M., Nonomura H. ( 1987 ). Humic acid-vitamin agar, a new medium for the selective isolation of soil actinomycetes. . J Ferment Technol 65, 501509. [CrossRef]
    [Google Scholar]
  12. Higgins M. L. ( 1967 ). Release of sporangiospores by a strain of Actinoplanes. . J Bacteriol 94, 495498.[PubMed]
    [Google Scholar]
  13. Kamalam A., Thambiah A. S. ( 1987 ). A clinico-pathological study of actinomycotic mycetomas caused by Actinomadura madurae and Actinomadura pelletierii . . Mycopathologia 97, 151163. [CrossRef] [PubMed]
    [Google Scholar]
  14. Kämpfer P., Kroppenstedt R. M. ( 1996 ). Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. . Can J Microbiol 42, 9891005. [CrossRef]
    [Google Scholar]
  15. 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, 716721. [CrossRef] [PubMed]
    [Google Scholar]
  16. Lane D. J. ( 1991 ). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115148. Edited by Stackebrandt E., Goodfellow M. . Chichester:: Wiley;.
    [Google Scholar]
  17. Lechevalier H. A., Lechevalier M. P. ( 1968 ). A critical evaluation of the genera of aerobic actinomycetes. . In The Actinomycetales , pp. 393405. Edited by Prauser H. . Jena:: VEB Gustav Fischer Verlag;.
    [Google Scholar]
  18. Lechevalier M. P., Lechevalier H. A. ( 1970 ). Chemical composition as a criterion in the classification of aerobic actinomycetes. . Int J Syst Bacteriol 20, 435443. [CrossRef]
    [Google Scholar]
  19. Lechevalier M. P., DeBièvre C., Lechevalier H. A. ( 1977 ). Chemotaxonomy of aerobic actinomycetes: phospholipid composition. . Biochem Syst Ecol 5, 249260. [CrossRef]
    [Google Scholar]
  20. Mikami H., Ishida Y. ( 1983 ). Post-column fluorometric detection of reducing sugar in high-performance liquid chromatography using arginine. . Bunseki Kagaku 32, E207E210. [CrossRef]
    [Google Scholar]
  21. 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, 233241. [CrossRef]
    [Google Scholar]
  22. Miyadoh S., Amano S., Tohyama H., Shomura T. ( 1987 ). Actinomadura atramentaria, a new species of the Actinomycetales . . Int J Syst Bacteriol 37, 342346. [CrossRef]
    [Google Scholar]
  23. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  24. Sasser M. ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE:: MIDI Inc;.
    [Google Scholar]
  25. Shirling E. B., Gottlieb D. ( 1966 ). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol 16, 313340. [CrossRef]
    [Google Scholar]
  26. Stackebrandt E., Ebers J. ( 2006 ). Taxonomic parameters revisited: tarnished gold standards. . Microbiol Today 33, 152155.
    [Google Scholar]
  27. Stackebrandt E., Rainey F. A., Ward-Rainey N. L. ( 1997 ). Proposal for a new hierarchic classification system, Actinobacteria classis nov.. Int J Syst Bacteriol 47, 479491. [CrossRef]
    [Google Scholar]
  28. Staneck J. L., Roberts G. D. ( 1974 ). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. . Appl Microbiol 28, 226231.[PubMed]
    [Google Scholar]
  29. Tamaoka J. ( 1994 ). Determination of DNA base compositon. . In Chemical Methods in Prokaryotic Systematics, pp. 463470. Edited by Goodfellow M., O’Donnell A. G. . Chichester:: John Wiley & Sons;.
    [Google Scholar]
  30. Tamaoka J., Komagata K. ( 1984 ). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. . FEMS Microbiol Lett 25, 125128. [CrossRef]
    [Google Scholar]
  31. Tamura T., Ishida Y., Nozawa Y., Otoguro M., Suzuki K. ( 2009 ). Transfer of Actinomadura spadix Nonomura and Ohara 1971 to Actinoallomurus spadix gen. nov., comb. nov., and description of Actinoallomurus amamiensis sp. nov., Actinoallomurus caesius sp. nov., Actinoallomurus coprocola sp. nov., Actinoallomurus fulvus sp. nov., Actinoallomurus iriomotensis sp. nov., Actinoallomurus luridus sp. nov., Actinoallomurus purpureus sp. nov. and Actinoallomurus yoronensis sp. nov.. Int J Syst Evol Microbiol 59, 18671874. [CrossRef] [PubMed]
    [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 Evol 28, 27312739. [CrossRef] [PubMed]
    [Google Scholar]
  33. Taylor H. D., Knoche L., Grauville W. C. ( 1958 ). Color Harmony Manual, , 4th edn.. Chicago:: Container Corporation of America;.
    [Google Scholar]
  34. 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, 48764882. [CrossRef] [PubMed]
    [Google Scholar]
  35. Tomiyasu I. ( 1982 ). Mycolic acid composition and thermally adaptative changes in Nocardia asteroides . . J Bacteriol 151, 828837.[PubMed]
    [Google Scholar]
  36. Trujillo M. E., Goodfellow M. ( 2012 ). Genus III. Actinomadura Lechevalier and Lechevalier 1970, 400AL emend. Kroppenstedt, Stackebrandt and Goodfellow 1990, 156. . In Bergey’s Manual of Systematic Bacteriology, , 2nd edn., vol. 5, pp. 19401959. Edited by Goodfellow M., Kämpfer P., Busse M.-J., Trujillo M. E., Suzuki K.-L., Ludwig W., Whitman W. B. . NewYork:: Springer;.
    [Google Scholar]
  37. Uchida K., Aida K. ( 1984 ). An improved method for the glycolate test for simple identification of the acyl type of bacterial cell walls. . J Gen Appl Microbiol 30, 131134. [CrossRef]
    [Google Scholar]
  38. 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 the reconciliation of approaches to bacterial systematic. . Int J Syst Bacteriol 37, 463464. [CrossRef]
    [Google Scholar]
  39. Williams S. T., Cross T. ( 1971 ). Chapter XI Actinomycetes. . Methods Microbiol 4, 295334. [CrossRef]
    [Google Scholar]
  40. Yamada Y., Katsura K., Kawasaki H., Widyastuti Y., Saono S., Seki T., Uchimura T., Komagata K. ( 2000 ). Asaia bogorensis gen. nov., sp. nov., an unusual acetic acid bacterium in the α-Proteobacteria. . Int J Syst Evol Microbiol 50, 823829. [CrossRef] [PubMed]
    [Google Scholar]
  41. 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, 373383.[PubMed]
    [Google Scholar]
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