1887

Abstract

Forty strains isolated from soil taken from a hay meadow were assigned to the genus on the basis of colonial properties. 16S rRNA gene sequence analysis showed that the isolates formed a group that was most closely related to the type strain of , but well separated from other type strains and from ‘’ NRRL B-16294. Twelve of 13 representative isolates had identical 16S rRNA gene sequences and formed a subclade that was distinct from corresponding phyletic lines composed of the remaining isolate, strain BK63, the ‘’ strain and the type strainsof recognized species. DNA–DNA relatedness data indicated that representatives of the multi-membered 16S rRNA gene subclade, isolate BK63 and the ‘’ subclade formed distinct genomic species; all of these organisms had chemotaxonomic and morphological properties consistent with their classification in the genus . They were also distinguished from one another and from the type strainsof recognized species based on a range of phenotypic properties. Combined genotypic and phenotypic data showed that isolate BK63, isolates BK51, BK53 and BK69, and strain NRRL B-16294 should be classified in the genus as representing novel species. The names proposed for these species are sp. nov. (type strain BK63  = DSM 45324  = KACC 20933  = NRRL B-24775), sp. nov. (type strain BK51  = DSM 45323  = KACC 20899  = NRRL B-24774) and sp. nov., nom. rev. (type strain NRRL B-16294  = ATCC 31222  = DSM 43910  = JCM 3272  = NBRC 14103).

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2010-08-01
2019-12-14
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References

  1. Ara I. , Bakir M. A. , Kudo T. . ( 2008; ). Transfer of Catellatospora koreensis Lee et al. 2000 as Catelliglobosispora koreensis gen. nov., comb. nov. and Catellatospora tsunoense Asano et al. 1989 as Hamadaea tsunoensis gen. nov., comb. nov., and emended description of the genus Catellatospora Asano and Kawamoto 1986 emend. Lee and Hah 2002. . Int J Syst Evol Microbiol 58:, 1950–1960. [PubMed] [CrossRef]
    [Google Scholar]
  2. Atalan E. , Manfio G. P. , Ward A. C. , Kroppenstedt R. M. , Goodfellow M. . ( 2000; ). Biosystematic studies on novel streptomycetes from soil. . Antonie van Leeuwenhoek 77:, 337–353. [PubMed] [CrossRef]
    [Google Scholar]
  3. Celmer W. D. , Cullen W. P. , Moppett C. E. , Routien J. B. , Jefferson M. T. , Shibakawa R. , Tone J. . ( 1978; ). Polycyclic ether antibiotic produced by new species of Dactylosporangium . . US Patent 4,081,532.
    [Google Scholar]
  4. Collins M. D. . ( 1994; ). Isoprenoid quinones. . In Chemical Methods in Prokaryotic Systematics, pp. 265–309. Edited by Goodfellow M. , O’Donnell A. G. . . Chichester:: Wiley;.
    [Google Scholar]
  5. Felsenstein J. . ( 1981; ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17:, 368–376. [PubMed] [CrossRef]
    [Google Scholar]
  6. Felsenstein J. . ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39:, 783–791.[CrossRef]
    [Google Scholar]
  7. Felsenstein J. . ( 1993; ). phylip (phylogeny inference package), version 3.5c. . Distributed by the author. Department of Genome Sciences, University of Washington;, Seattle, USA:.
  8. Fitch W. M. . ( 1971; ). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20:, 406–416.[CrossRef]
    [Google Scholar]
  9. 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. [PubMed] [CrossRef]
    [Google Scholar]
  10. Goodfellow M. , Brown A. B. , Cai J. P. , Chun J. S. , Collins M. D. . ( 1997; ). Amycolatopsis japonicum sp. nov., an actinomycete producing (S,S)-N,N′-ethylenediaminedisuccinic acid. . Syst Appl Microbiol 20:, 78–84.[CrossRef]
    [Google Scholar]
  11. Goodfellow M. , Kumar Y. , Labeda D. P. , Sembiring L. . ( 2007; ). The Streptomyces violaceusniger clade: a home for streptomycetes with rugose ornamented spores. . Antonie van Leeuwenhoek 92:, 173–199.[PubMed] [CrossRef]
    [Google Scholar]
  12. Jeon Y. S. , Chung H. , Park S. , Hur I. , Lee J. H. , Chun J. . ( 2005; ). jphydit: a java-based integrated environment for molecular phylogeny of ribosomal RNA sequences. . Bioinformatics 21:, 3171–3173. [PubMed] [CrossRef]
    [Google Scholar]
  13. 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]
  14. 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]
  15. Jurado V. , Laiz L. , Gonzalez J. M. , Hernandez-Marine M. , Valens M. , Saiz-Jimenez C. . ( 2005; ). Phyllobacterium catacumbae sp. nov., a member of the order ‘Rhizobiales’ isolated from Roman catacombs. . Int J Syst Evol Microbiol 55:, 1487–1490. [PubMed] [CrossRef]
    [Google Scholar]
  16. Kelly K. L. . ( 1958; ). Centroid notations for the revised ISCC-NBS color name blocks. . J Res Nat Bur Standards U S A 61:, 427.[CrossRef]
    [Google Scholar]
  17. Kim B. J. , Lee S. H. , Lyu M. A. , Kim S. J. , Bai G. H. , Chae G. T. , Kim E. C. , Cha C. Y. , Kook Y. H. . ( 1999; ). Identification of mycobacterial species by comparative sequence analysis of the RNA polymerase gene (rpoB). . J Clin Microbiol 37:, 1714–1720. [PubMed]
    [Google Scholar]
  18. Kim B.-J. , Kim C.-J. , Chun J. , Koh Y.-H. , Lee S.-H. , Hyun J.-W. , Cha C.-Y. , Kook Y.-H. . ( 2004; ). Phylogenetic analysis of the genera Streptomyces and Kitasatospora based on partial RNA polymerase β-subunit gene (rpoB) sequences. . Int J Syst Evol Microbiol 54:, 593–598. [PubMed] [CrossRef]
    [Google Scholar]
  19. Kluge A. G. , Farris J. S. . ( 1969; ). Quantitative phyletics and the evolution of anurans. . Syst Zool 18:, 1–32.[CrossRef]
    [Google Scholar]
  20. Koch C. , Kroppenstedt R. M. , Rainey F. A. , Stackebrandt E. . ( 1996; ). 16S ribosomal DNA analysis of the genera Micromonospora, Actinoplanes, Catellatospora, Catenuloplanes, Couchioplanes, Dactylosporangium, and Pilimelia and emendation of the family Micromonosporaceae . . Int J Syst Bacteriol 46:, 765–768. [PubMed] [CrossRef]
    [Google Scholar]
  21. Kroppenstedt R. M. . ( 1985; ). Fatty acid and menaquinone analysis of actinomycetes and related organisms. . In Chemical Methods in Bacterial Systematics (Society for Applied Bacteriology Technical Series vol. 20), pp. 173–199. Edited by Goodfellow M. , Minnikin D. E. . . New York:: Academic Press;.
    [Google Scholar]
  22. Kumar S. , Tamura K. , Nei M. . ( 2004; ). mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. . Brief Bioinform 5:, 150–163. [PubMed] [CrossRef]
    [Google Scholar]
  23. 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]
  24. Minnikin D. E. , Alshamaony L. , Goodfellow M. . ( 1975; ). Differentiation of Mycobacterium, Nocardia, and related taxa by thin-layer chromatographic analysis of whole-organism methanolysates. . J Gen Microbiol 88:, 200–204. [PubMed] [CrossRef]
    [Google Scholar]
  25. 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.[CrossRef]
    [Google Scholar]
  26. National Bureau of Standards ( 1964; ). ISCC-NBS Color Manual Charts Illustrated with Centroid Colors . . Supplement to NBS Circular 553. Washington, DC:: US Government Printing Office;.
  27. O’Donnell A. G. , Falconer C. , Goodfellow M. , Ward A. C. , Williams E. . ( 1993; ). Biosystematics and diversity amongst novel carboxydotrophic actinomycetes. . Antonie van Leeuwenhoek 64:, 325–340. [PubMed] [CrossRef]
    [Google Scholar]
  28. Rosselló-Mora R. , Amann R. . ( 2001; ). The species concept for prokaryotes. . FEMS Microbiol Rev 25:, 39–67. [PubMed] [CrossRef]
    [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. Sambrook J. , Fritsch E. F. , Maniatis T. . ( 1989; ). Molecular Cloning: a Laboratory Manual, 2nd edn. . Cold Spring Harbor, NY:: Cold Spring Harbor Laboratory;.
  31. Sasser M. . ( 1990; ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. . Newark, DE:: MIDI Inc.;
  32. Schaal K. P. . ( 1985; ). Identification of clinically significant actinomycetes and related bacteria using chemical techniques. . In Chemical Methods in Bacterial Systematics, pp. 359–381. Edited by Goodfellow M. , Minnikin D. E. . London:: Academic Press;.
    [Google Scholar]
  33. Shirling E. B. , Gottlieb D. . ( 1966; ). Methods for characterization of Streptomyces species. . Int J Syst Bacteriol 16:, 313–340.[CrossRef]
    [Google Scholar]
  34. Shomura T. , Kojima M. , Yoshida J. , Ito M. , Amano S. , Totsugawa K. , Niwa T. , Inouye S. , Ito T. , Niida T. . ( 1980; ). Studies on a new aminoglycoside antibiotic, dactimicin. I. Producing organism and fermentation. . J Antibiot 33:, 924–930. [PubMed] [CrossRef]
    [Google Scholar]
  35. Shomura T. , Yoshida J. , Miyadoh S. , Ito T. , Niida T. . ( 1983; ). Dactylosporangium vinaceum sp. nov. . Int J Syst Bacteriol 33:, 309–313.[CrossRef]
    [Google Scholar]
  36. Shomura T. , Amano S. , Tohyama H. , Yoshida J. , Ito T. , Niida T. . ( 1985; ). Dactylosporangium roseum sp. nov. . Int J Syst Bacteriol 35:, 1–4.[CrossRef]
    [Google Scholar]
  37. Shomura T. , Amano S. , Yoshida J. , Kojima M. . ( 1986; ). Dactylosporangium fulvum sp. nov. . Int J Syst Bacteriol 36:, 166–169.[CrossRef]
    [Google Scholar]
  38. 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]
  39. Tan G. Y. A. , Ward A. C. , Goodfellow M. . ( 2006; ). Exploration of Amycolatopsis diversity in soil using genus-specific primers and novel selective media. . Syst Appl Microbiol 29:, 557–569. [PubMed] [CrossRef]
    [Google Scholar]
  40. Thawai C. , Tanasupawat S. , Kudo T. . ( 2008; ). Micromonospora pattaloongensis sp. nov., isolated from a Thai mangrove forest. . Int J Syst Evol Microbiol 58:, 1516–1521. [PubMed] [CrossRef]
    [Google Scholar]
  41. Thiemann J. E. , Pagani H. , Beretta G. . ( 1967; ). A new genus of the Actinoplanaceae: Dactylosporangium gen. nov. . Arch Mikrobiol 58:, 42–52. [PubMed] [CrossRef]
    [Google Scholar]
  42. Uchida K. , Kudo T. , Suzuki K. , Nakase T. . ( 1999; ). A new rapid method of glycolate test by diethyl ether extraction, which is applicable to a small amount of bacterial cells of less than one milligram. . J Gen Appl Microbiol 45:, 49–56. [PubMed] [CrossRef]
    [Google Scholar]
  43. Vobis G. . ( 1989; ). Genus Dactylosporangium Thiemann, Pagani & Beretta. . In Bergey’s Manual of Systematic Bacteriology, vol. 4, pp. 2429–2433. Edited by Williams S. T. , Sharpe M. E. , Holt J. G. . . Baltimore:: Williams & Wilkins;.
    [Google Scholar]
  44. Vobis G. . ( 2006; ). The genus Actinoplanes and related genera. . In The Prokaryotes: a Handbook on the Biology of Bacteria, , 3rd edn., vol. 3, pp. 623–653. Edited by Dworkin M. , Falkow S. , Rosenberg E. , Schleifer K. H. , Stackebrandt E. . . New York:: Springer;.
    [Google Scholar]
  45. 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. et al. ( 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.[CrossRef]
    [Google Scholar]
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