1887

Abstract

A polyphasic study was undertaken to establish the taxonomic status of a wheat-field soil isolate. The organism, strain 88, was found to have a range of chemical and morphological properties consistent with its classification in the genus . Phylogenetic analysis based on an almost-complete 16S rRNA gene sequence of the strain showed that it formed a monophyletic clade with the type strain of . However, the two strains shared low DNA–DNA relatedness. Strain 88 also had a profile of phenotypic properties that readily distinguished it from representatives of the species of with validly published names. It is evident from the combination of genotypic and phenotypic data that the organism should be classified within a novel species of the genus , for which the name sp. nov. is proposed. The type strain is strain 88 (=CGMCC 4.3530 =JCM 14614).

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2008-05-01
2024-03-29
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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, T. M., Smida, J. & Stackebrandt, E.(1988). The phylogeny of mycolateless 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. 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]
  9. 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]
  10. Goodfellow, M., Lacey, J., Athalye, M., Embley, T. M. & Bowen, T.(1989).Saccharopolyspora gregorii and Saccharopolyspora hordei: two new actinomycete species from fodder. J Gen Microbiol 135, 2125–2139. [Google Scholar]
  11. 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, 4–5. 511–519.[CrossRef] [Google Scholar]
  12. Gordon, R. E. & Mihm, J. M.(1957). A comparative study of some strains received as nocardiae. J Bacteriol 73, 15–27. [Google Scholar]
  13. 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]
  14. 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]
  15. 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]
  16. 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]
  17. 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]
  18. 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]
  19. Kawato, M. & Shinobu, R.(1959). On Streptomyces herbaricolor sp. nov., supplement: a simple technique for microscopical observation. Mem Osaka Univ Lib Arts Educ B 8, 114–119. [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. 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]
  22. 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 as Saccharopolyspora rectivirgula comb. nov. and emended genus description of Saccharopolyspora. Int J Syst Bacteriol 39, 430–441.[CrossRef] [Google Scholar]
  23. Krasilnikov, N. A. & Agre, N. S.(1964). On two new species of Thermopolyspora. Hindustan Antibiot Bull 6, 97–107. [Google Scholar]
  24. Labeda, D. P.(1987). Transfer of the type strain of Streptomyces erythraeus (Waksman, 1923) Waksman and Henrici 1948 to the genus Saccharopolyspora as Saccharopolyspora erythraea sp. nov., and designation of the neotype strain for Streptomyces erythraeus. Int J Syst Bacteriol 37, 19–22.[CrossRef] [Google Scholar]
  25. Labeda, D. P.(2001).Crossiella gen. nov., a new genus related to Streptoalloteichus. Int J Syst Evol Microbiol 51, 1575–1579. [Google Scholar]
  26. 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]
  27. Labeda, D. P. & Kroppenstedt, R. M.(2006).Goodfellowia gen. nov., a new genus of the Pseudonocardineae related to Actinoalloteichus, containing Goodfellowia coeruleoviolacea gen. nov., comb. nov. Int J Syst Evol Microbiol 56, 1203–1207.[CrossRef] [Google Scholar]
  28. Labeda, D. P., Kroppenstedt, R. M., Euzéby, J. P. & Tindall, B. J.(2008). Proposal of Goodfellowiella gen. nov. to replace the illegitimate genus name Goodfellowia Labeda and Kroppenstedt 2006. Int J Syst Evol Microbiol 58, 1047–1048.[CrossRef] [Google Scholar]
  29. 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]
  30. Lechevalier, H. A. & Lechevalier, M. P.(1970). Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20, 435–443.[CrossRef] [Google Scholar]
  31. 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.
  32. 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]
  33. 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]
  34. 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]
  35. Mertz, F. P. & Yao, R. C.(1990).Saccharopolyspora spinosa sp. nov. isolated from soil collected in a sugar mill rum still. Int J Syst Bacteriol 40, 34–39.[CrossRef] [Google Scholar]
  36. 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]
  37. 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]
  38. Mordarska, H., Mordarski, M. & Goodfellow, M.(1972). Chemotaxonomic characters and classification of some nocardioform bacteria. J Gen Microbiol 71, 77–86.[CrossRef] [Google Scholar]
  39. 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, 28–96. [Google Scholar]
  40. Saitou, N. & Nei, M.(1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425. [Google Scholar]
  41. Sasser, M.(1990).Identification of bacteria by gas chromatography of cellular fatty acids, Technical Note 101. Newark, DE: MIDI, Inc.
  42. Shirling, E. B. & Gottlieb, D.(1966). Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16, 313–340.[CrossRef] [Google Scholar]
  43. Song, L., Li, W., Wang, Q., Chen, G., Zhang, Y. & Xu, L.(2005).Jiangella gansuensis gen. nov., sp. nov., a novel actinomycete from a desert soil in north-west China. Int J Syst Evol Microbiol 55, 881–884.[CrossRef] [Google Scholar]
  44. 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]
  45. Tamura, T., Liu, Z., Zhang, Y. & Hatano, K.(2000).Actinoalloteichus cyanogriseus gen. nov., sp. nov. Int J Syst Evol Microbiol 50, 1435–1440.[CrossRef] [Google Scholar]
  46. 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]
  47. Wang, Y., Zhang, Z. & Ruan, J.(1996). A proposal to transfer Microbispora bispora (Lechevalier 1965) to a new genus, Thermobispora gen. nov., as Thermobispora bispora comb. nov. Int J Syst Bacteriol 46, 933–938.[CrossRef] [Google Scholar]
  48. Warwick, S. T., 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]
  49. 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]
  50. 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]
  51. 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]
  52. 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]
  53. 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]
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