Rapid identification of filamentous actinomycetes to the genus level using genus-specific 16S rRNA gene restriction fragment patterns

International Journal of Systematic and Evolutionary Microbiology

Volumn 53, Issue 6, 2003, Pages 1907-1915

  Cook, Andrew E ^a   Meyers, Paul R ^a  

^a UNIVERSITY OF CAPE TOWN   (South Africa)

Author keywords

[No Author keywords available]

Indexed keywords

ENDONUCLEASE; RESTRICTION ENDONUCLEASE; RNA 16S;

ACTINOBACTERIA; ARTICLE; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATION; CONTROLLED STUDY; DNA ISOLATION; GEL ELECTROPHORESIS; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RESTRICTION FRAGMENT; RNA SEQUENCE; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; SPECIES DIFFERENTIATION; SPECIES IDENTIFICATION; STREPTOMYCES;

ACTINOBACTERIA; DNA, BACTERIAL; DNA, RIBOSOMAL; RESTRICTION MAPPING; RNA, BACTERIAL; RNA, RIBOSOMAL, 16S;

ACTINOBACTERIA (CLASS); BACTERIA (MICROORGANISMS); STREPTOMYCES; UNCULTURED ACTINOMYCETE;

EID: 0344034163     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.02680-0     Document Type: Article

References (36)

1. Alves, A., Santos, O., Henriques, I. & Correia, A. (2002). Evaluation of methods for molecular typing and identification of members of the genus Brevibacterium and other related species. FEMS Microbiol Lett 213, 205-211.
2. Anderson, A. S. & Wellington, E. M. H. (2001). The taxonomy of Streptomyces and related genera. Int J Syst Evol Microbiol 51, 797-814.
3. Atlas, R. M. (1993). Handbook of Microbiological Media. Edited by L. C. Parks. Boca Raton: CRC Press.
4. Beyazova, M. & Lechevalier, M. P. (1993). Taxonomic utility of restriction endonuclease fingerprinting of large DNA fragments from Streptomyces strains. Int J Syst Bacteriol 43, 674-682.
5. Elander, R. P. (1987). Microbial screening, selection and strain improvement. In Basic Biotechnology, pp. 217-251. Edited by J. Bu'Lock & B. Kristiansen. London: Academic Press.
6. Euzéby, J. P. (2002). List of Bacterial Names with Standing in Nomenclature (http://www.bacterio.cict.fr/).
7. Gochnauer, M. B., Leppard, G. G., Komaratat, P., Kates, M., Novitsky, T. & Kushner, D. J. (1975). Isolation and characterization of Actinopolyspora halophila, gen. et sp. nov., an extremely halophilic actinomycete. Can J Microbiol 21, 1500-1511.
8. Gurtler, V., Wilson, V. A. & Mayall, B. C. (1991). Classification of medically important clostridia using restriction endonuclease site differences of PCR-amplified 16S rDNA. J Gen Microbiol 137, 2673-2679.
9. Harvey, I., Cormier, Y., Beaulieu, C., Akimov, V. N., Mériaux, A. & Duchaine, C. (2001). Random amplified ribosomal DNA restriction analysis for rapid identification of thermophilic actinomycete-like bacteria involved in hypersensitivity pneumonitis. Syst Appl Microbiol 24, 277-284.
10. Kohler, G., Ludwig, W. & Schleifer, K. H. (1991). Differentiation of lactococci by rRNA gene restriction analysis. FEMS Microbiol Lett 84, 307-312.
11. Korn-Wendisch, F., Rainey, F., Kroppenstedt, R. M., Kempf, A., Majazza, A., Kutzner, H. J. & Stackebrandt, E. (1995). Thermocrispum gen. nov., a new genus of the order Actinomycetales, and description of Thermocrispum municipale sp. nov. and Thermocrispum agresta sp. nov. Int J Syst Bacteriol 45, 67-77.
12. Labeda, D. P., Testa, R. T., Lechevalier, M. P. & Lechevalier, H. A. (1984). Saccharothrix: a new genus of the Actinomycetales related to Nocardiopsis. Int J Syst Bacteriol 34, 426-431.
13. Labeda, D. P., Testa, R. T., Lechevalier, M. P. & Lechevalier, H. A. (1985). Glycomyces, a new genus of the Actinomycetales. Int J Syst Bacteriol 35, 417-421.
14. Lacey, J. (1973). Actinomycetes in soils, composts and fodders. In Actinomycetalcs: Characteristics and Practical Importance, pp. 231-251. Edited by G. Sykes & F. A. Skinner. London: Academic Press.
15. Laurent, F. J., Provost, F. & Boiron, P. (1999). Rapid identification of clinically relevant Nocardia species to genus level by 16S rRNA gene PCR. J Clin Microbiol 37, 99-102.
16. Lazzarini, A., Cavaletti, L., Toppo, G. & Marinelli, F. (2000). Rare genera of actinomycetes as potential producers of new antibiotics. Antonie van Leeuwenhoek 78, 399-405.
17. Lechevalier, H. A. (1989). A practical guide to generic identification of actinomycetes. In Bergey's Manual of Systematic Bacteriology, vol. 4, pp. 2344-2347. Edited by S. T. Williams, M. E. Sharpe & J. G. Holt. Baltimore: Williams & Wilkins.
18. 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.
19. Mehling, A., Wehmeier, U. F. & Piepersberg, W. (1995). Nucleotide sequences of streptomycete 16S ribosomal DNA: towards a specific identification system for streptomycetes using PCR. Microbiology 141, 2139-2147.
20. Park, Y.-H., Yoon, J.-H., Shin, Y. K., Suzuki, K.-i., Kudo, T., Seino, A., Kim, H.-J., Lee, J.-S. & Lee, S. T. (1999). Classification of 'Nocardioides fulvus' IFO 14399 and Nocardioides sp. ATCC 39419 in Kribbella gen. nov., as Kribbella flavida sp. nov. and Kribbella sandramycini sp. nov. Int J Syst Bacteriol 49, 743-752.
21. Prauser, H. (1976). Nocardioides, a new genus of the order Actinomycetales. Int J Syst Bacteriol 26, 58-65.
22. Reichert, K., Lipski, A., Pradella, S., Stackebrandt, E. & Altendorf, K. (1998). Pseudonocardia asaccharolytica sp. nov. and Pseudonocardia sulfidoxydans sp. nov., two new dimethyl disulfide-degrading actinomycetes and emended description of the genus Pseudonocardia. Int J Syst Bacteriol 48, 441-449.
23. Runmao, H., Lin, C. & Guizhen, W. (1988). Saccharomonospora cyanea sp. nov. Int J Syst Bacteriol 38, 444-446.
24. Shirling, E. B. & Gottlieb, D. (1966). Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16, 313-340.
25. Soini, H., Bottger, E. C. & Viljanen, M. K. (1994). Identification of mycobacteria by PCR-based sequence determination of the 32-kilodalton-protein gene. J Clin Microbiol 32, 2944-2947.
26. 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.
27. Steingrube, V. A., Gibson, J. L., Brown, B. A., Zhang, Y., Wilson, R. W., Rajagopalan & Wallace, R. J., Jr (1995a). PCR amplification and restriction analysis of a 65-kilodalton heat shock protein gene sequence for taxonomic separation of rapidly growing mycobacteria. J Clin Microbiol 33, 149-153.
28. Steingrube, V. A., Brown, B. A., Gibson, J. L. & 7 other authors (1995b). DNA amplification and restriction endonuclease analysis for differentiation of 12 species and taxa of Nocardia, including recognition of four new taxa within the Nocardia asteroides complex. J Clin Microbiol 33, 3096-3101.
29. Steingrube, V. A., Wilson, R. W., Brown, B. A., Jost, K. C., Jr, Blacklock, Z., Gibson, J. L. & Wallace, R. J., Jr (1997). Rapid identification of the clinically significant species and taxa of aerobic actinomycetes, including Actinomadura, Gordona, Nocardia, Rhodococcus, Streptomyces, and Tsukamurella isolates, by DNA amplification and restriction endonuclease analysis. J Clin Microbiol 35, 817-822.
30. Tamura, T., Hayakawa, M. & Hatano, K. (1999). Sporichthya brevicatena sp. nov. Int J Syst Evol Microbiol 49, 1779-1784.
31. Tamura, T., Zhiheng, L., Yamei, Z. & Hatano, K. (2000). Actinoalloteichus cyanogriseus gen. nov., sp. nov. Int J Syst Evol Microbiol 50, 1435-1440.
32. Telenti, A., Marchesi, F., Balz, M., Bally, F., Bottger, E. C. & Bodmer, T. (1993). Rapid identification of mycobacteria to the species level by polymerase chain reaction and restriction enzyme analysis. J Clin Microbiol 31, 175-178.
33. AL. In Bergey's Manual of Systematic Bacteriology, vol. 4, pp. 2543-2545. Edited by S. T. Williams, M. E. Sharpe & J. G. Holt. Baltimore: Williams & Wilkins.
34. Watve, M. G., Tickoo, R., Jog, M. M. & Bhole, B. D. (2001). How many antibiotics are produced by the genus Streptomyces? Arch Microbiol 176, 386-390.
35. Weisburg, W. G., Barns, S. M., Pelletier, D. A. & Lane, D. J. (1991). 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173, 697-703.
36. Wilson, R. W., Steingrube, V. A., Brown, B. A. & Wallace, R. J., Jr (1998). Clinical application of PCR-restriction enzyme pattern analysis for rapid identification of aerobic actinomycete isolates. Clin Microbiol 36, 148-152.