1887

Abstract

A Gram-stain-positive, novel actinobacterium, designated strain JL-6, was isolated from the litter of a bamboo () forest in Damyang, Korea. Strain JL-6 had white‐grey, smooth, cylindrical spores that were borne in straight, long spore-chains. The novel strain grew aerobically at 15–28 °C (optimum, 28 °C), pH 4.0–8.0 (optimum, pH 5.5) and with 0–1.5 % (w/v) NaCl. The cell-wall peptidoglycan contained -diaminopimelic acid, glutamic acid, alanine and glycine. The predominant menaquinones were MK-9(H) and MK-9(H). Whole-cell hydrolysates mainly contained glucose and ribose. Phosphatidylinositol and phosphatidylcholine were the diagnostic phospholipids. The GC content of the genomic DNA was 72.8 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain JL-6 belonged to the genus with sequence similarities ranging from 97.3 % to 98.3 %. However, DNA–DNA hybridization between JL-6 and the closest related strain, , ATCC 700248 and other closely related species in the genus showed <50 % relatedness. Based on these observations, strain JL-6 is proposed to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is JL-6 ( = KACC 16470 = NBRC 108882).

Funding
This study was supported by the:
  • , Regional SubGenBank Support Program of Rural Development Administration, Republic of Korea
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.049528-0
2014-02-01
2021-01-18
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/2/528.html?itemId=/content/journal/ijsem/10.1099/ijs.0.049528-0&mimeType=html&fmt=ahah

References

  1. Bérdy J. ( 2005 ). Bioactive microbial metabolites. . J Antibiot (Tokyo) 58, 126. [CrossRef] [PubMed]
    [Google Scholar]
  2. Collins M. D. ( 1985 ). Isoprenoid quinone analysis in bacterial classification and identification. . In Chemical Methods in Bacterial Systematics pp. 267287. Edited by Goodfellow M., Minnikin D. E. . London:: Academic Press;.
    [Google Scholar]
  3. Cui X.-L., Mao P.-H., Zeng M., Li W.-J., Zhang L.-P., Xu L.-H., Jiang C.-L. ( 2001 ). Streptimonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae . . Int J Syst Evol Microbiol 51, 357363.[PubMed]
    [Google Scholar]
  4. 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]
  5. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368376. [CrossRef] [PubMed]
    [Google Scholar]
  6. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783791. [CrossRef]
    [Google Scholar]
  7. Fitch W. M. ( 1971 ). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20, 406416. [CrossRef]
    [Google Scholar]
  8. 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]
  9. Kimura M. ( 1980 ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16, 111120. [CrossRef] [PubMed]
    [Google Scholar]
  10. Küster E., Williams S. T. ( 1964 ). Selection of media for isolation of Streptomycetes . . Nature 202, 928929. (London). [CrossRef] [PubMed]
    [Google Scholar]
  11. Labeda D. P. ( 1993 ). DNA relatedness among strains of the Streptomyces lavendulae phenotypic cluster group. . Int J Syst Bacteriol 43, 822825. [CrossRef]
    [Google Scholar]
  12. Labeda D. P. ( 1998 ). DNA relatedness among the Streptomyces fulvissimus and Streptomyces griseoviridis phenotypic cluster groups. . Int J Syst Bacteriol 48, 829832. [CrossRef]
    [Google Scholar]
  13. Labeda D. P., Lyons A. J. ( 1992 ). DNA relatedness among strains of the sweet potato pathogen Streptomyces ipomoea (Person and Martin 1940) Waksman and Henrici 1948. . Appl Environ Microbiol 58, 532535.[PubMed]
    [Google Scholar]
  14. Larkin M. A., Blackshields G., Brown N. P., Chenna R., McGettigan P. A., McWilliam H., Valentin F., Wallace I. M., Wilm A. & other authors ( 2007 ). clustal w and clustal_x version 2.0. . Bioinformatics 23, 29472948. [CrossRef] [PubMed]
    [Google Scholar]
  15. Lazzarini A., Cavaletti L., Toppo G., Marinelli F. ( 2000 ). Rare genera of actinomycetes as potential producers of new antibiotics. . Antonie van Leeuwenhoek 78, 399405. [CrossRef] [PubMed]
    [Google Scholar]
  16. 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]
  17. Lechevalier M. P., Lechevalier H. A. ( 1980 ). The chemotaxonomy of actinomycetes. . In Actinomycete Taxonomy (Special Publication no. 6), pp. 227291. Edited by Dietz A., Thayer D. W. . Arlington, VA:: Society for Industrial Microbiology;.
    [Google Scholar]
  18. Lee H. J., Whang K. S. ( 2010 ). Biodiversity and phylogenetic analysis of Streptomyces collected from bamboo forest soil. . Kor J Microbiol 46, 262269.
    [Google Scholar]
  19. Lee H. J., Han S. I., Whang K. S. ( 2012 ). Streptomyces gramineus sp. nov., an antibiotic-producing actinobacterium isolated from bamboo (Sasa borealis) rhizosphere soil. . Int J Syst Evol Microbiol 62, 856859. [CrossRef] [PubMed]
    [Google Scholar]
  20. McCarthy A. J., Williams S. T. ( 1992 ). Actinomycetes as agents of biodegradation in the environment–a review. . Gene 115, 189192. [CrossRef] [PubMed]
    [Google Scholar]
  21. Mesbah M., Premachandran U., Whitman W. B. ( 1989 ). Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. . Int J Syst Bacteriol 39, 159167. [CrossRef]
    [Google Scholar]
  22. 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]
  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. Shirling E. B., Gottlieb D. ( 1968a ). Cooperative description of type cultures of Streptomyces. II. Species descriptions from first study. . Int J Syst Bacteriol 18, 69189. [CrossRef]
    [Google Scholar]
  27. Shirling E. B., Gottlieb D. ( 1968b ). Cooperative description of type cultures of Streptomyces. III. Additional species descriptions from first and second studies. . Int J Syst Bacteriol 18, 279392. [CrossRef]
    [Google Scholar]
  28. Shirling E. B., Gottlieb D. ( 1969 ). Cooperative description of type cultures of Streptomyces. IV. Species descriptions from the second, third and fourth studies. . Int J Syst Bacteriol 19, 391512. [CrossRef]
    [Google Scholar]
  29. 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]
  30. 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]
  31. 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. 24522492. Edited by Williams S. T., Sharpe M. E., Holt J. G. . Baltimore:: Williams & Wilkins;.
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.049528-0
Loading
/content/journal/ijsem/10.1099/ijs.0.049528-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited this month 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