Skip to content
1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo International Journal of Systematic and Evolutionary Microbiology

Volume 59, Issue 5

sp. nov., isolated from grass-field soil Free

Abstract

An actinomycete isolated from soil from a field of grass was analysed using a polyphasic taxonomic approach. The organism, designated strain W12, was found to have a range of chemical and morphological properties consistent with its classification in the genus . An almost-complete 16S rRNA gene sequence determined for the strain was aligned with corresponding sequences for representatives of the genus , using two tree-making algorithms. The novel organism formed a monophyletic clade with the type strain of , but the DNA–DNA relatedness value was low. Strain W12 also had a phenotypic profile that readily distinguished it from recognized representatives of the genus . It is evident from the combined genotypic and phenotypic data that the new organism should be classified as a novel species of the genus . The name proposed for this new taxon is sp. nov., with strain W12 (=CGMCC 4.3529=JCM 14613) as the type strain.

  • Published Online:
© SGM
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.65863-0
2009-05-01
2025-03-19
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/59/5/1076.html?itemId=/content/journal/ijsem/10.1099/ijs.0.65863-0&mimeType=html&fmt=ahah

References

  1. Collins, M. D., Howarth, O. W., Grund, E. & Kroppenstedt, R. M.(1987). Isolation and structural determination of new members of the vitamin K2 series in Nocardia brasiliensis. FEMS Microbiol Lett 41, 35–39.[CrossRef] [Google Scholar]
  2. De Ley, J., Cattoir, H. & Reynaerts, A.(1970). The quantitative measurements of DNA hybridization from renaturation rates. Eur J Biochem 12, 133–142.[CrossRef] [Google Scholar]
  3. Embley, T. M.(1992). The family Pseudonocardiaceae. In The Prokaryotes, vol. 1, pp. 996–1027. Edited by A. Balows, H. G. Trüper, M. Dworkin, W. Harder & K.-H. Schleifer. Berlin: Springer.
  4. 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, 44–52.[CrossRef] [Google Scholar]
  5. Felsenstein, J.(1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[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 3.6. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  8. Goodfellow, M. & Orchard, V. A.(1974). Antibiotic sensitivity of some nocardioform bacteria and its value as a criterion for taxonomy. J Gen Microbiol 83, 375–387.[CrossRef] [Google Scholar]
  9. Goodfellow, M., Stainsby, F. M., Davenport, R., Chun, J. & Curtis, T.(1998). Activated sludge foaming: the true extent of actinomycete diversity. Water Sci Technol 37, 511–519.[CrossRef] [Google Scholar]
  10. Gordon, R. E. & Mihm, J. M.(1957). A comparative study of some strains received as nocardiae. J Bacteriol 73, 15–27. [Google Scholar]
  11. 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]
  12. 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]
  13. Huß, V. A. R., Festl, H. & Schleifer, K. H.(1983). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4, 184–192.[CrossRef] [Google Scholar]
  14. Jahnke, K. D.(1992).basic computer program for evaluation of spectroscopic DNA renaturation data from GILFORD SYSTEM 2600 spectrophotometer on a PC/XT/AT type personal computer. J Microbiol Methods 15, 61–73.[CrossRef] [Google Scholar]
  15. Kämpfer, P. & Kroppenstedt, R. M.(1996). Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. Can J Microbiol 42, 989–1005.[CrossRef] [Google Scholar]
  16. 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]
  17. 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]
  18. Korn-Wendisch, F., Kempf, A., Grund, E., Kroppenstedt, R. M. & Kutzner, H. J.(1989). Transfer of Faenia rectivirgula Kurup and Agre 1983 to the genus Saccharopolyspora Lacey and Goodfellow 1975, elevation of Saccharopolyspora hirsuta subsp. taberi Labeda 1987 to species level, and emended description of the genus Saccharopolyspora. Int J Syst Bacteriol 39, 430–441.[CrossRef] [Google Scholar]
  19. Lacey, J. & Goodfellow, M.(1975). A novel actinomycete from sugar cane bagasse: Saccharopolyspora hirsuta gen. et sp. nov. J Gen Microbiol 88, 75–85.[CrossRef] [Google Scholar]
  20. Lechevalier, M. P. & Lechevalier, H. A.(1970). Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20, 435–443.[CrossRef] [Google Scholar]
  21. Lechevalier, M. P. & Lechevalier, H. A.(1980). The chemotaxonomy of actinomycetes. In Actinomycete Taxonomy, Special Publication 6, pp. 227–291. Arlington, VA: Society for Industrial Microbiology.
  22. 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]
  23. Lu, Z., Liu, Z., Wang, L., Zhang, Y., Qi, W. & Goodfellow, M.(2001).Saccharopolyspora flava sp. nov. and Saccharopolyspora thermophila sp. nov., novel actinomycetes from soil. Int J Syst Evol Microbiol 51, 319–325. [Google Scholar]
  24. Marmur, J. & Doty, P.(1962). Determination of the base composition of deoxyribonucleic acid from its denaturation temperature. J Mol Biol 5, 109–118.[CrossRef] [Google Scholar]
  25. 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.[CrossRef] [Google Scholar]
  26. 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]
  27. Mordarska, H., Mordarski, M. & Goodfellow, M.(1972). Chemotaxonomic characters and classification of some nocardioform bacteria. J Gen Microbiol 71, 77–86.[CrossRef] [Google Scholar]
  28. Rainey, F. A., Ward-Rainey, N., Kroppenstedt, R. M. & Stackebrandt, E.(1996). The genus Nocardiopsis represents a phylogenetically coherent taxon and a distinct actinomycete lineage: proposal of Nocardiopsiaceae fam. nov. Int J Syst Bacteriol 46, 1088–1092.[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. [Google Scholar]
  30. Sasser, M.(1990).Identification of bacteria by gas chromatography of cellular fatty acids, Technical Note 101. Newark, DE: MIDI Inc.
  31. Shirling, E. B. & Gottlieb, D.(1966). Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16, 313–340.[CrossRef] [Google Scholar]
  32. Stackebrandt, E., Rainey, F. A. & Ward-Rainey, N. L.(1997). Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int J Syst Bacteriol 47, 479–491.[CrossRef] [Google Scholar]
  33. 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]
  34. 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 a proposal to combine the genera Amycolata and Pseudonocardia in an emended genus Pseudonocardia. Int J Syst Bacteriol 44, 293–299.[CrossRef] [Google Scholar]
  35. 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. & other authors(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]
  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 Microbiology (Beijing)] 16, 176–178. [Google Scholar]
  37. Yuan, L.-J., Zhang, Y.-Q., Guan, Y., Wei, Y.-Z., Li, Q.-P., Yu, L.-Y., Li, W.-J. & Zhang, Y.-Q.(2008).Saccharopolyspora antimicrobica sp. nov., an actinomycete from soil. Int J Syst Evol Microbiol 58, 1180–1185.[CrossRef] [Google Scholar]
  38. Zhang, J., Zhang, Y., Xiao, C., Liu, Z. & Goodfellow, M.(2002).Rhodococcus maanshanensis sp. nov., a novel actinomycete from soil. Int J Syst Evol Microbiol 52, 2121–2126.[CrossRef] [Google Scholar]
  39. Zhang, J., Liu, Z. & Goodfellow, M.(2003).Nocardia caishijiensis sp. nov., a novel soil actinomycete. Int J Syst Evol Microbiol 53, 999–1004.[CrossRef] [Google Scholar]
  40. Zhang, J., Wu, D., Zhang, J., Liu, Z. & Song, F.(2008).Saccharopolyspora shandongensis sp. nov., isolated from wheat-field soil. Int J Syst Evol Microbiol 58, 1094–1099.[CrossRef] [Google Scholar]
  41. Zhou, Z. H., Liu, Z. H., Qian, Y. D., Kim, S. B. & Goodfellow, M.(1998).Saccharopolyspora spinosporotrichia sp. nov., a novel actinomycete from soil. Int J Syst Bacteriol 48, 53–58.[CrossRef] [Google Scholar]
/content/journal/ijsem/10.1099/ijs.0.65863-0
Loading
Saccharopolyspora jiangxiensis sp. nov., isolated from grass-field soil
Int J Syst Evol Microbiol 59, 1076 (2009); https://doi.org/10.1099/ijs.0.65863-0
/content/journal/ijsem/10.1099/ijs.0.65863-0
/content/journal/ijsem/10.1099/ijs.0.65863-0
Loading

Data & Media loading...

Most cited 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