1887

Abstract

The taxonomic status of six neutrotolerant acidophilic streptomycetes isolated from acidic soils in Yunnan Province, China, was established using a polyphasic approach. The morphological and chemotaxonomic characteristics revealed that the isolates belong to the genus . Almost complete 16S rRNA gene sequences of the isolates were determined and aligned with available corresponding sequences of representatives of the family ; phylogenetic trees were inferred using four tree-making algorithms. The isolates formed a distinct, albeit heterogeneous, subclade in the 16S rRNA gene tree together with the type strain of , but were readily distinguishable from the latter using DNA–DNA hybridization and phenotypic data. It was evident from the genotypic and phenotypic data that the isolates belonged to four novel species, for which the following names are proposed: sp. nov. (type strain 701=CGMCC 4.2022=JCM 13274), sp. nov. (type strain 1413=CGMCC 4.2025=JCM 13276), sp. nov. (type strain 13c15=CGMCC 4.2026=JCM 13277) and sp. nov. (type strain 1307=CGMCC 4.2023=JCM 13275); isolates 317 and 913 belong to this latter species.

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2006-05-01
2024-03-29
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References

  1. Christensen H., Angen O., Mutters R., Olsen J. E., Bisgaard M. 2000; DNA–DNA hybridization determined in micro-wells using covalent attachment of DNA. Int J Syst Evol Microbiol 50:1095–1102 [CrossRef]
    [Google Scholar]
  2. Collins M. D. 1985; Isoprenoid quinone analysis in classification and identification. In Chemical Methods in Bacterial Systematics pp  267–287 Edited by Goodfellow M., Minnikin D. E. London: Academic Press;
    [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. Felsenstein J. 1993 phylip (phylogeny inference package), version 3.5c. Distributed by the author. Department of Genome Sciences University of Washington; Seattle, USA:
    [Google Scholar]
  7. 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]
  8. Goodfellow M., Dawson D. 1978; Qualitative and quantitative studies of bacteria colonizing Picea sitchensis litter. Soil Biol Biochem 10:303–307 [CrossRef]
    [Google Scholar]
  9. 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]
  10. Huang Y., Cui Q., Wang L., Rodriguez C., Quintana E., Goodfellow M., Liu Z. 2004; Streptacidiphilus jiangxiensis sp. nov., a novel actinomycete isolated from acidic rhizosphere soil in China. Antonie van Leeuwenhoek 86:159–165 [CrossRef]
    [Google Scholar]
  11. Kawato M., Shinobu R. 1959; On Streptomyces herbaricolor sp. nov., supplement: a simple technique for microscopical observation. Mem Osaka Unit Lib Arts Educ B Nat Sci 8:114–119
    [Google Scholar]
  12. Khan M. R., Williams S. T. 1975; Studies on the ecology of actinomycetes in soil. VIII. Distribution and characteristics of acidophilic actinomycetes. Soil Biol Biochem 7:345–348 [CrossRef]
    [Google Scholar]
  13. Kim S. B., Falconer C., Williams E., Goodfellow M. 1998; Streptomyces thermocarboxydovorans sp. nov. and Streptomyces thermocarboxydus sp. nov., two moderately thermophilic carboxydotrophic species from soil. Int J Syst Bacteriol 48:59–68 [CrossRef]
    [Google Scholar]
  14. Kim S. B., Lonsdale J. T., Seong C. N., Goodfellow M. 2003; Streptacidiphilus gen. nov., acidophilic actinomycetes with wall chemotype I and emendation of the family Streptomycetaceae (Waksman & Henrici 1943AL) emend.Rainey et al . 1997. Antonie van Leeuwenhoek 83:107–116 [CrossRef]
    [Google Scholar]
  15. Kim S. B., Seong C. N., Jeon S. J., Bae K. S., Goodfellow M. 2004; Taxonomic study on neutrotolerant acidophilic actinomycetes isolated from soil and description of Streptomyces yeochonensis sp. nov. Int J Syst Evol Microbiol 54:211–214 [CrossRef]
    [Google Scholar]
  16. 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]
  17. Kluge A. G., Farris F. G. 1969; Quantitative phyletics and the evolution of anurans. Syst Zool 18:1–32 [CrossRef]
    [Google Scholar]
  18. Kroppenstedt R. M. 1985; Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Chemical Methods in Bacterial Systematics pp  173–199 Edited by Goodfellow M., Minnikin D. E. London: Academic Press;
    [Google Scholar]
  19. Lechevalier H. A., Lechevalier M. P. 1980; The chemotaxonomy of actinomycetes. In Actinomycete Taxonomy, Special Publication 6) pp  277–284 Edited by Dietz A., Thayer D. W. Arlington, VA: Society for Industrial Microbiology;
    [Google Scholar]
  20. 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]
  21. Liu Z., Shi Y., Zhang Y., Zhou Z., Lu Z., Li W., Huang Y., Rodriguez C., Goodfellow M. 2005; Classification of Streptomyces griseus (Krainsky 1914). Waksman and Henrici 1948 and related species and the transfer of ‘ Microstreptospora cinerea ’ to the genus Streptomyces as Streptomyces yanii sp. nov. Int J Syst Evol Microbiol 55:1605–1610 [CrossRef]
    [Google Scholar]
  22. Lonsdale J. T. 1985; Aspects of the biology of acidophilic actinomycetes . PhD thesis University of; Newcastle, UK:
  23. Manfio G. P., Zakrzewska-Czerwinska J., Atalan E., Goodfellow M. 1995; Towards minimal standards for the description of Streptomyces species. Biotekhnologia 7:8242–253
    [Google Scholar]
  24. Marmur J., Doty P. 1962; Determination of base composition of deoxyribonucleic acid from its denaturation temperature. J Mol Biol 5:109–118 [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 isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241 [CrossRef]
    [Google Scholar]
  26. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
    [Google Scholar]
  27. Seong C. N. 1992; Numerical taxonomy of acidophilic and neutrotolerant actinomycetes isolated from acid soil in Korea . PhD thesis Seoul National University; Korea:
  28. Seong C. N., Goodfellow M., Ward A. C., Hah Y. C. 1993; Numerical classification of acidophilic actinomycetes isolated from acid soil in Korea. Kor J Microbiol 31:355–363
    [Google Scholar]
  29. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [CrossRef]
    [Google Scholar]
  30. 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]
  31. Van de Peer Y., De Wachter R. 1994; treecon for windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment. Comput Appl Biosci 10:569–570
    [Google Scholar]
  32. Wang L., Huang Y., Cui Q., Xie Q., Zhang Y., Liu Z. 2003; Isolation of acidophilic and acidoduric streptomycetes using dispersion and differential centrifugation approach. Microbiology [English translation of Microbiology (Beijing)] 30:104–106
    [Google Scholar]
  33. Wayne L. G., Brenner D. J., Colwell R. R. 9 other authors 1987; International Committee on Bacterial Systematics. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464 [CrossRef]
    [Google Scholar]
  34. Williams S. T., Flowers T. H. 1978; The influence of pH on starch hydrolysis by neutrophilic and acidophilic actinomycetes. Microbios 20:99–106
    [Google Scholar]
  35. Williams S. T., Khan M. R. 1974; Antibiotics – a soil microbiologist's viewpoint. Postepy Hig Med Dosw 28:395–408
    [Google Scholar]
  36. Williams S. T., Robinson C. S. 1981; The role of streptomycetes in decomposition of chitin in acidic soils. J Gen Microbiol 127:55–63
    [Google Scholar]
  37. Williams S. T., Davies F. L., Mayfield C. I., Khan M. R. 1971; Studies on the ecology of actinomycetes in soil. II. The pH requirements of streptomycetes from two acid soils. Soil Biol Biochem 3:187–195 [CrossRef]
    [Google Scholar]
  38. Williams S. T., Goodfellow M., Alderson G., Wellington E. M. H., Sneath P. H. A., Sackin M. J. 1983; Numerical classification of Streptomyces and related genera. J Gen Microbiol 129:1743–1813
    [Google Scholar]
  39. 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  2594–2598 Edited by Williams S. T., Sharpe M. E., Holt J. G. Baltimore: Williams & Wilkins;
    [Google Scholar]
  40. Wu C., Lu X., Qin M., Wang Y., Ruan J. 1989; Analysis of menaquinone compound in microbial cells by HPLC. Microbiology [English translation of Microbiology (Beijing)] 16:176–178
    [Google Scholar]
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