1887

Abstract

The taxonomic position of an actinomycete, strain 1BDZ, isolated from a clinical human source was determined using a polyphasic approach. Phylogenetic analysis based on almost complete 16S rDNA sequences showed that this organism consistently formed a distinct line with the subclade within the genus , and shared moderately low 16S rDNA similarity (<96·5 %) with other species. The organism was also found to have chemical and morphological properties typical of members of the genus . A range of phenotypic characteristics readily distinguished this strain from representatives of all species of with validly published names. On the basis of these data, a novel species, sp. nov., is proposed to accommodate strain 1BDZ (=AS 4.1729=PCM 2600).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.02685-0
2004-03-01
2020-12-02
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/54/2/ijs540359.html?itemId=/content/journal/ijsem/10.1099/ijs.0.02685-0&mimeType=html&fmt=ahah

References

  1. Al-Musallam A. A., Al-Zarban S. S., Fasasi Y. A., Kroppenstedt R. M., Stackebrandt E. 2003; Amycolatopsis keratiniphila sp. nov., a novel keratinolytic soil actinomycete from Kuwait. Int J Syst Evol Microbiol 53:871–874 [CrossRef]
    [Google Scholar]
  2. Barreiro C., Pisabarro A., Martin J. F. 2000; Characterization of the ribosomal rrnD operon of the cephamycin-producer ‘ Nocardia lactamdurans ’ shows that this actinomycete belongs to the genus Amycolatopsis . Syst Appl Microbiol 23:15–24 [CrossRef]
    [Google Scholar]
  3. Chun J., Goodfellow M. 1995; A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences. Int J Syst Bacteriol 45:240–245 [CrossRef]
    [Google Scholar]
  4. Chun J., Kim S. B., Oh Y. K. 7 other authors 1999; Amycolatopsis thermoflava sp. nov., a novel soil actinomycete from Hainan Island, China. Int J Syst Bacteriol 49:1369–1373 [CrossRef]
    [Google Scholar]
  5. Collins M. D. 1985; Isoprenoid quinone analyses in bacterial classification and identification. In Chemical Methods in Bacterial Systematics pp  267–287 Edited by Goodfellow M., Minnikin D. E. London: Academic Press;
    [Google Scholar]
  6. de Boer L., Dijkhuizen L., Grobben G., Goodfellow M., Stackebrandt E., Parlett J. H., Whitehead D., Witt D. 1990; Amycolatopsis methanolica sp. nov., a facultatively methylotrophic actinomycete. Int J Syst Bacteriol 40:194–204 [CrossRef]
    [Google Scholar]
  7. Embley M. T., Smida J., Stackebrandt E. 1988; The phylogeny of mycolate-less wall chemotype IV actinomycetes and description of Pseudonocardiaceae fam. nov. Syst Appl Microbiol 11:16–19 [CrossRef]
    [Google Scholar]
  8. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [CrossRef]
    [Google Scholar]
  9. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [CrossRef]
    [Google Scholar]
  10. Felsenstein J. 1993 phylip (phylogenetic inference package) version 3.5c. Distributed by the author University of Washington; Seattle, USA:
    [Google Scholar]
  11. Fitch W. M., Margoliash E. 1967; Construction of phylogenetic trees: a method based on mutation distances as estimated from cytochrome c sequences is of general applicability. Science 155:279–284 [CrossRef]
    [Google Scholar]
  12. Goodfellow M., Brown A. B., Cai J., Chun J., 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]
  13. Goodfellow M., Kim S. B., Minnikin D. E., Whitehead D., Zhou Z.-H., Mattinson-Rose A. D. 2001; Amycolatopsis sacchari sp. nov., a moderately thermophilic actinomycete isolated from vegetable matter. Int J Syst Evol Microbiol 51:187–193
    [Google Scholar]
  14. 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]
  15. Hasegawa T., Takizawa M., Tanida S. 1983; A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 29:319–322 [CrossRef]
    [Google Scholar]
  16. Henssen A., Kothe H. W., Kroppenstedt R. M. 1987; Transfer of Pseudonocardia azurea and “ Pseudonocardia fastidiosa ” to the genus Amycolatopsis , with emended species description. Int J Syst Bacteriol 37:292–295 [CrossRef]
    [Google Scholar]
  17. Huang Y., Qi W., Lu Z., Liu Z., Goodfellow M. 2001; Amycolatopsis rubida sp. nov., a new Amycolatopsis species from soil. Int J Syst Evol Microbiol 51:1093–1097 [CrossRef]
    [Google Scholar]
  18. Huang Y., Wang L., Lu Z., Hong L., Liu Z., Tan G. Y. A., Goodfellow M. 2002; Proposal to combine the genera Actinobispora and Pseudonocardia in an emended genus Pseudonocardia , and description of Pseudonocardia zijingensis sp. nov. Int J Syst Evol Microbiol 52:977–982 [CrossRef]
    [Google Scholar]
  19. 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]
  20. Kim S. B., Goodfellow M. 1999; Reclassification of Amycolatopsis rugosa Lechevalier et al . 1986 as Prauserella rugosa gen. nov., comb. nov.. Int J Syst Bacteriol 49:507–512 [CrossRef]
    [Google Scholar]
  21. Kim B., Sahin N., Tan G. Y. A., Zakrzewska-Czerwinska J., Goodfellow M. 2002; Amycolatopsis eurytherma sp. nov., a thermophilic actinomycete isolated from soil. Int J Syst Evol Microbiol 52:889–894 [CrossRef]
    [Google Scholar]
  22. 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]
  23. Labeda D. P., Kroppenstedt R. M. 2000; Phylogenetic analysis of Saccharothrix and related taxa: proposal for Actinosynnemataceae fam. nov. Int J Syst Evol Microbiol 50:331–336 [CrossRef]
    [Google Scholar]
  24. Labeda D. P., Donahue J. M., Williams N. M., Sells S. F., Henton M. M. 2003; Amycolatopsis kentuckyensis sp. nov., Amycolatopsis lexingtonensis sp. nov. and Amycolatopsis pretoriensis sp. nov., isolated from equine placentas. Int J Syst Evol Microbiol 53:1601–1605 [CrossRef]
    [Google Scholar]
  25. Lechevalier H. A., Lechevalier M. P. 1980; The chemotaxonomy of actinomycetes. In Actinomycete Taxonomy pp  277–284 Society for Industrial Microbiology Special Publication; no 6 Edited by Dietz A., Thayer D. W. Arlington, VA: Society for Industrial Microbiology;
    [Google Scholar]
  26. Lechevalier M. P., Prauser H., Labeda D. P., Ruan J.-S. 1986; Two new genera of nocardioform actinomycetes: Amycolata gen.nov. and Amycolatopsis gen. nov. Int J Syst Bacteriol 36:29–37 [CrossRef]
    [Google Scholar]
  27. Lee S. D., Hah Y. C. 2001; Amycolatopsis albidoflavus sp. nov. Int J Syst Evol Microbiol 51:645–650
    [Google Scholar]
  28. Marmur J., Doty P. 1962; Determination of base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 5:109–118 [CrossRef]
    [Google Scholar]
  29. Minnikin D. E., Hutchinson I. G., Caldicott A. B., Goodfellow M. 1980; Thin-layer chromatography of methanolysates of mycolic acid-containing bacteria. J Chromatogr 188:221–233 [CrossRef]
    [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 isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241 [CrossRef]
    [Google Scholar]
  31. Paściak M., Ekiel I., Grzegorzewicz A., Mordarska H., Gamian A. 2002; Structure of the major glycolipid from Rothia dentocariosa . Biochim Biophys Acta 1594199–205 [CrossRef]
    [Google Scholar]
  32. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
    [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. 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]
  35. Warwick S., Bowen T., McVeigh H., Embley T. M. 1994; A phylogenetic analysis of the family Pseudonocardiaceae and the genera Actinokineospora and Saccharothrix with 16S rRNA sequences and proposal to combine the genera Amycolata and Pseudonocardia in an emended genus Pseudonocardia . Int J Syst Bacteriol 44:293–299 [CrossRef]
    [Google Scholar]
  36. Wu C., Lu X., Qin M., Wang Y., Ruan J. 1989; Analysis of menaquinone compound in microbial cells by HPLC. Microbiology (English translation of Mikrobiologiya ) 16176–178
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.02685-0
Loading
/content/journal/ijsem/10.1099/ijs.0.02685-0
Loading

Data & Media loading...

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