1887

Abstract

Ten actinomycete strains that form chains of spiral or looped spores were isolated from soil and dung samples in Japan. They contained - and -lysine, -diaminopimelic acid (Apm), -glutamic acid and - and -alanine in the cell-wall peptidoglycan, madurose as a characteristic whole-cell sugar, MK-9(H) and MK-9(H) as the major isoprenoid quinones and iso-C as the major cellular fatty acid and showed genomic DNA G+C contents of 69–74 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that the isolated actinomycete strains consistently formed a monophyletic cluster with NBRC 14099 and a separate line of descent in the phylogenetic cluster of the family . NBRC 14099 also contained - and -lysine in addition to -Apm. This genetic and phenotypic evidence revealed that the actinomycete strains could be clearly differentiated from the other members of the family and that they warranted separate genus status. We conclude that should be assigned the status of the type species of a new genus as gen. nov., comb. nov. (type strain NBRC 14099 =ATCC 27298 =BCRC 13386 =CBS 261.72 =CIP 105479 =DSM 43459 =JCM 3146 =KCTC 9252 =NCIMB 11118 =NRRL B-16128). Further, we conclude that the ten new isolates should be assigned to the novel species sp. nov. (type strain TT00-28 =NBRC 103682 =KCTC 19537), sp. nov. (type strain A3015 =NBRC 103678 =KCTC 19535), sp. nov. (type strain TT04-09 =NBRC 103688 =KCTC 19542), sp. nov. (type strain TT99-66 =NBRC 103680 =KCTC 19536), sp. nov. (type strain TT02-47 =NBRC 103685 =KCTC 19539), sp. nov. (type strain TT02-15 =NBRC 103683 =KCTC 19538), sp. nov. (type strain TTN02-30 =NBRC 103687 =KCTC 19541) and sp. nov. (type strain TTN02-22 =NBRC 103686 =KCTC 19540).

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2009-08-01
2019-12-09
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References

  1. Brosius, J., Palmer, M. L., Kennedy, P. J. & Noller, H. F. ( 1978; ). Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli. Proc Natl Acad Sci U S A 75, 4801–4805.[CrossRef]
    [Google Scholar]
  2. Ezaki, T., Hashimoto, Y., Takeuchi, N., Yamamoto, H., Liu, S.-L., Miura, H., Matsui, K. & Yabuuchi, E. ( 1988; ). Simple genetic identification method of viridans group streptococci by colorimetric dot hybridization and quantitative fluorometric hybridization in microdilution wells. J Clin Microbiol 26, 1708–1713.
    [Google Scholar]
  3. 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, 224–229.[CrossRef]
    [Google Scholar]
  4. Felsenstein, J. ( 1981; ). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef]
    [Google Scholar]
  5. Felsenstein, J. ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef]
    [Google Scholar]
  6. 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]
  7. Hall, T. A. ( 1999; ). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41, 95–98.
    [Google Scholar]
  8. Hayakawa, M. & Nonomura, H. ( 1987; ). Humic acid-vitamin agar, a new medium for selective isolation of soil actinomycetes. J Ferment Technol 65, 501–509.[CrossRef]
    [Google Scholar]
  9. Hayakawa, M. & Nonomura, H. ( 1989; ). A new method for the intensive isolation of actinomycetes from soil. Actinomycetologica 3, 95–104.[CrossRef]
    [Google Scholar]
  10. 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]
    [Google Scholar]
  11. Kluge, A. G. & Farris, F. S. ( 1969; ). Quantitative phyletics and the evolution of anurans. Syst Zool 18, 1–32.[CrossRef]
    [Google Scholar]
  12. Lechevalier, H. A. & Lechevalier, M. P. ( 1970; ). A critical evaluation of the genera of aerobic actinomycetes. In The Actinomycetales, pp. 393–405. Edited by H. Prauser. Jena: VEB Gustav Fischer.
  13. 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]
  14. MIDI ( 2002; ). MIS Operating Manual, version 4.5. Newark, DE: MIDI, Inc.
  15. Nonomura, H. & Ohara, Y. ( 1971; ). Distribution of actinomycetes in soil. XI. Some new species of the genus Actinomadura Lechevalier et al. J Ferment Technol 49, 904–912.
    [Google Scholar]
  16. Nozawa, Y., Sakai, N., Arai, K., Kawasaki, Y. & Harada, K. ( 2007; ). Reliable and sensitive analysis of amino acids in the peptidoglycan of actinomycetes using the advanced Marfey's method. J Microbiol Methods 70, 306–311.[CrossRef]
    [Google Scholar]
  17. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  18. Sasser, M. ( 1990; ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  19. Schleifer, K. H. & Kandler, O. ( 1972; ). Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36, 407–477.
    [Google Scholar]
  20. Seino, A., Arai, M., Enokita, R., Okazaki, T. & Furuichi, A. ( 1985; ). Identification Manual of Actinomycetes. Tokyo: The Society for Actinomycetes Japan (in Japanese).
  21. Swofford, D. L. ( 2002; ). paup*: phylogenetic analysis using parsimony (*and other methods), version 4.0b10. Sunderland, MA: Sinauer.
  22. Tamura, T. & Hatano, K. ( 2001; ). Phylogenetic analysis of the genus Actinoplanes and transfer of Actinoplanes minutisporangius Ruan et al. 1986 and ‘Actinoplanes aurantiacus’ to Cryptosporangium minutisporangium comb. nov. and Cryptosporangium aurantiacum sp. nov. Int J Syst Evol Microbiol 51, 2119–2125.[CrossRef]
    [Google Scholar]
  23. Tamura, T., Nakagaito, Y., Nishii, T., Hasegawa, T., Stackebrandt, E. & Yokota, A. ( 1994; ). A new genus of the order Actinomycetales, Couchioplanes gen. nov., with descriptions of Couchioplanes caeruleus (Horan and Brodsky 1986) comb. nov. and Couchioplanes caeruleus subsp. azureus subsp. nov. Int J Syst Bacteriol 44, 193–203.[CrossRef]
    [Google Scholar]
  24. 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.[CrossRef]
    [Google Scholar]
  25. 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.[CrossRef]
    [Google Scholar]
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Maximum-likelihood phylogenetic tree derived from 16S rRNA gene sequences of species and related actinomycetes belonging to the family . [PDF](56 KB)

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Two-dimensional TLC of the polar lipids of strain NBRC 14099 . Chloroform/methanol/water (65:25:4, by vol.) was used in the first dimension and chloroform/methanol/acetic acid/water (80:12:15:4, by vol.) was used in the second dimension. Lipids were visualized by spraying the plates with Dittmer–Lester reagent (Dittmer & Lester, 1964). DPG, Diphosphatidylglycerol; PG, phosphatidylglycerol.

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Scanning electron micrograph of growth of strain NBRC 14099 on HV agar medium (pH 6) after 3 weeks at 28 °C. Bar, 2 µm.

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[PDF file of Supplementary Tables S1 and S2](83 KB)

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