메뉴 건너뛰기




Volumn 293, Issue 5, 2003, Pages 359-370

Evaluation of RIDOM, MicroSeq, and GenBank services in the molecular identification of Nocardia species

Author keywords

16S rDNA; Molecular identification; Nocardia; RIDOM

Indexed keywords

DNA 16S;

EID: 0344307625     PISSN: 14384221     EISSN: None     Source Type: Journal    
DOI: 10.1078/1438-4221-00271     Document Type: Article
Times cited : (39)

References (47)
  • 1
    • 0027456711 scopus 로고
    • Nocardiosis in renal transplant recipients undergoing immunosuppression with cyclosporine
    • Arduino, R. C., Johnson, P. C., Miranda, A. G.: Nocardiosis in renal transplant recipients undergoing immunosuppression with cyclosporine. Clin. Infect. Dis. 16, 505-512 (1993).
    • (1993) Clin. Infect. Dis. , vol.16 , pp. 505-512
    • Arduino, R.C.1    Johnson, P.C.2    Miranda, A.G.3
  • 3
    • 0028215789 scopus 로고
    • Differences in the interactions of Nocardia asteroides with macrophage, endothelial, and astrocytoma cell lines
    • Beaman, L., Beaman, B. L.: Differences in the interactions of Nocardia asteroides with macrophage, endothelial, and astrocytoma cell lines. Infect. Immun. 62, 1787-1798 (1994).
    • (1994) Infect. Immun. , vol.62 , pp. 1787-1798
    • Beaman, L.1    Beaman, B.L.2
  • 6
    • 0002794165 scopus 로고
    • Broth Microdilution MIC Test for Nocardia spp
    • (H. Isenberg, ed.). American Society for Microbiology, Washington, DC
    • Brown, B. A., Wallace, R. J.: Broth Microdilution MIC Test for Nocardia spp. In: Clinical microbiology procedures handbook (H. Isenberg, ed.), pp. 5.12.1-9. American Society for Microbiology, Washington, DC 1994.
    • (1994) Clinical Microbiology Procedures Handbook , pp. 5121-5129
    • Brown, B.A.1    Wallace, R.J.2
  • 7
    • 0036162066 scopus 로고    scopus 로고
    • Identification of Mycobacterium spp. by using a commercial 16S ribosomal DNA sequencing kit and additional sequencing libraries
    • Cloud, J. L., Neal, H., Rosenberry, R., Turenne, C. Y., Jama, M., Hillyard, D. R., Carroll, K. C.: Identification of Mycobacterium spp. by using a commercial 16S ribosomal DNA sequencing kit and additional sequencing libraries. J. Clin. Microbiol. 40, 400-406 (2002).
    • (2002) J. Clin. Microbiol. , vol.40 , pp. 400-406
    • Cloud, J.L.1    Neal, H.2    Rosenberry, R.3    Turenne, C.Y.4    Jama, M.5    Hillyard, D.R.6    Carroll, K.C.7
  • 8
    • 0033989512 scopus 로고    scopus 로고
    • Identification of Nocardia species by restriction endonuclease analysis of an amplified portion of the 16S rRNA gene
    • Conville, P. S., Fischer, S. H., Cartwright, C. P., Witebsky, F. G.: Identification of Nocardia species by restriction endonuclease analysis of an amplified portion of the 16S rRNA gene. J. Clin. Microbiol. 38, 158-164 (2000).
    • (2000) J. Clin. Microbiol. , vol.38 , pp. 158-164
    • Conville, P.S.1    Fischer, S.H.2    Cartwright, C.P.3    Witebsky, F.G.4
  • 9
    • 0037338553 scopus 로고    scopus 로고
    • Conventional methods versus 16S ribosomal DNA sequencing for identification of nontuberculous mycobacteria: Cost analysis
    • Cook, V. C., Turenne, C. Y., Wolfe, J., Pauls, R., Kabani, A.: Conventional methods versus 16S ribosomal DNA sequencing for identification of nontuberculous mycobacteria: Cost analysis. J. Clin. Microbiol. 41, 1010-1015 (2003).
    • (2003) J. Clin. Microbiol. , vol.41 , pp. 1010-1015
    • Cook, V.C.1    Turenne, C.Y.2    Wolfe, J.3    Pauls, R.4    Kabani, A.5
  • 10
    • 0036315006 scopus 로고    scopus 로고
    • An improved method for post-PCR purification for mtDNA sequence analysis
    • Dugan, K. A., Lawrence, H. S., Hares, D. R., Fisher, C. L., Budowle, B.: An improved method for post-PCR purification for mtDNA sequence analysis. J. Forensic Sci. 47, 811-818 (2002).
    • (2002) J. Forensic Sci. , vol.47 , pp. 811-818
    • Dugan, K.A.1    Lawrence, H.S.2    Hares, D.R.3    Fisher, C.L.4    Budowle, B.5
  • 11
    • 0026585263 scopus 로고
    • How close is close: 16S rRNA sequence identify may not be sufficient to guarantee species identity
    • Fox, G. E., Wisotzkey, J. D., Jurtshuk, P.: How close is close: 16S rRNA sequence identify may not be sufficient to guarantee species identity. Int. J. Syst. Bacteriol. 42, 166-170 (1992).
    • (1992) Int. J. Syst. Bacteriol. , vol.42 , pp. 166-170
    • Fox, G.E.1    Wisotzkey, J.D.2    Jurtshuk, P.3
  • 12
    • 0027241144 scopus 로고
    • Sequence-based differentiation of strains in the Mycobacterium avium complex
    • Frothingham, R., Wilson, K. H.: Sequence-based differentiation of strains in the Mycobacterium avium complex. J. Bacteriol. 175, 2818-2825 (1993).
    • (1993) J. Bacteriol. , vol.175 , pp. 2818-2825
    • Frothingham, R.1    Wilson, K.H.2
  • 13
    • 0002157735 scopus 로고    scopus 로고
    • Actinomycetes systematics: An unfinished synthesis
    • (W. Köhler, ed.). Barth, Heidelberg
    • Goodfellow, M., Isik, K., Yates, E.: Actinomycetes systematics: an unfinished synthesis. In: Bacterial pathogenesis: modern approaches (W. Köhler, ed.), pp. 47-82. Barth, Heidelberg 1999.
    • (1999) Bacterial Pathogenesis: Modern Approaches , pp. 47-82
    • Goodfellow, M.1    Isik, K.2    Yates, E.3
  • 15
    • 0344286814 scopus 로고
    • Appendix A: Culture media, tests, and reagents in bacteriology
    • (R. C. Tilton, ed.). The C. V. Mosby Company, St. Louis, MO
    • Gunn, B. A., Keisler, J. F., Almazan, R. D.: Appendix A: culture media, tests, and reagents in bacteriology. In: Clinical and pathogenic microbiology (R. C. Tilton, ed.), p. 897. The C. V. Mosby Company, St. Louis, MO 1987.
    • (1987) Clinical and Pathogenic Microbiology , pp. 897
    • Gunn, B.A.1    Keisler, J.F.2    Almazan, R.D.3
  • 16
    • 0036084147 scopus 로고    scopus 로고
    • RIDOM: Ribosomal differentiation of medical microorganisms database
    • Harmsen, D.; Rothgänger, J., Frosch, M., Albert, J.: RIDOM: ribosomal differentiation of medical microorganisms database. Nucleic Acids Res. 30, 416-417 (2002).
    • (2002) Nucleic Acids Res. , vol.30 , pp. 416-417
    • Harmsen, D.1    Rothgänger, J.2    Frosch, M.3    Albert, J.4
  • 17
    • 0032985753 scopus 로고    scopus 로고
    • Intuitive hypertext-based molecular identification of micro-organisms
    • Harmsen, D., Rothgänger, J., Singer, C., Albert, J., Frosch, M.: Intuitive hypertext-based molecular identification of micro-organisms. Lancet 353, 291 (1999).
    • (1999) Lancet , vol.353 , pp. 291
    • Harmsen, D.1    Rothgänger, J.2    Singer, C.3    Albert, J.4    Frosch, M.5
  • 18
    • 0035092344 scopus 로고    scopus 로고
    • Diagnostics of Neisseriaceae and Moraxellaceae by ribosomal DNA sequencing: Ribosomal differentiation of medical microorganisms
    • Harmsen, D., Singer, C., Rothgänger, J., Tonjum, T., de Hoog, G. S., Shah, H., Albert, J., Frosch, M.: Diagnostics of Neisseriaceae and Moraxellaceae by ribosomal DNA sequencing: ribosomal differentiation of medical microorganisms. J. Clin. Microbiol. 39, 936-942 (2001).
    • (2001) J. Clin. Microbiol. , vol.39 , pp. 936-942
    • Harmsen, D.1    Singer, C.2    Rothgänger, J.3    Tonjum, T.4    De Hoog, G.S.5    Shah, H.6    Albert, J.7    Frosch, M.8
  • 20
    • 0036208802 scopus 로고    scopus 로고
    • Identification of medically relevant Nocardia species with an abbreviated battery of tests
    • Kiska, D. L., Hicks, K., Pettit, D. J.: Identification of medically relevant Nocardia species with an abbreviated battery of tests. J. Clin. Microbiol. 40, 1346-1351 (2002).
    • (2002) J. Clin. Microbiol. , vol.40 , pp. 1346-1351
    • Kiska, D.L.1    Hicks, K.2    Pettit, D.J.3
  • 21
    • 0001857117 scopus 로고
    • 16S/23S rRNA sequencing
    • (E. Stackebrandt, M. Goodfellow, eds.). John Wiley & Sons, Chichester
    • Lane, D.: 16S/23S rRNA sequencing. In: Nucleic acid techniques in bacterial systematics (E. Stackebrandt, M. Goodfellow, eds.), pp. 115-175. John Wiley & Sons, Chichester 1991.
    • (1991) Nucleic Acid Techniques in Bacterial Systematics , pp. 115-175
    • Lane, D.1
  • 23
    • 0034451650 scopus 로고    scopus 로고
    • The Nocardia salmonicida clade, including descriptions of Nocardia cummidelens sp. nov., Nocardia fluminea sp. nov. and Nocardia soli sp. nov
    • Maldonado, L., Hookey, J. V., Ward, A. C., Goodfellow, M.: The Nocardia salmonicida clade, including descriptions of Nocardia cummidelens sp. nov., Nocardia fluminea sp. nov. and Nocardia soli sp. nov. Antonie Van Leeuwenhoek 78, 367-377 (2000).
    • (2000) Antonie Van Leeuwenhoek , vol.78 , pp. 367-377
    • Maldonado, L.1    Hookey, J.V.2    Ward, A.C.3    Goodfellow, M.4
  • 25
  • 26
    • 0026546965 scopus 로고
    • Disseminated Nocardia transvalensis infection: An unusual opportunistic pathogen in severely immuno-compromised patients
    • McNeil, M. M., Brown, J. M., Magruder, C. H., Shearlock, K. T., Saul, R. A., Allred, D.P., Ajello, L.: Disseminated Nocardia transvalensis infection: an unusual opportunistic pathogen in severely immuno-compromised patients. J. Infect. Dis. 165, 175-178 (1992a).
    • (1992) J. Infect. Dis. , vol.165 , pp. 175-178
    • McNeil, M.M.1    Brown, J.M.2    Magruder, C.H.3    Shearlock, K.T.4    Saul, R.A.5    Allred, D.P.6    Ajello, L.7
  • 27
    • 0028200605 scopus 로고
    • The medically important aerobic actinomycetes: Epidemiology and microbiology
    • McNeil, M. M., Brown, J. M.: The medically important aerobic actinomycetes: epidemiology and microbiology. Clin. Microbiol. Rev. 7, 357-417 (1994).
    • (1994) Clin. Microbiol. Rev. , vol.7 , pp. 357-417
    • McNeil, M.M.1    Brown, J.M.2
  • 31
    • 0033989458 scopus 로고    scopus 로고
    • Sequence-based identification of Mycobacterium species using the MicroSeq 500 16S rDNA bacterial identification system
    • Patel, J. B., Leonard, D. G., Pan, X., Musser, J. M., Berman, R. E., Nachamkin, I.: Sequence-based identification of Mycobacterium species using the MicroSeq 500 16S rDNA bacterial identification system. J. Clin. Microbiol. 38, 246-251 (2000).
    • (2000) J. Clin. Microbiol. , vol.38 , pp. 246-251
    • Patel, J.B.1    Leonard, D.G.2    Pan, X.3    Musser, J.M.4    Berman, R.E.5    Nachamkin, I.6
  • 32
    • 0031969764 scopus 로고    scopus 로고
    • 16S rRNA sequence diversity in Mycobacterium celatum strains caused by presence of two different copies of 16S rRNA gene
    • Reischl, U., Feldmann, K., Naumann, L., Gaugler, B. J., Ninet, B., Hirschel, B., Emler, S.: 16S rRNA sequence diversity in Mycobacterium celatum strains caused by presence of two different copies of 16S rRNA gene. J. Clin. Microbiol. 36, 1761-1764 (1998).
    • (1998) J. Clin. Microbiol. , vol.36 , pp. 1761-1764
    • Reischl, U.1    Feldmann, K.2    Naumann, L.3    Gaugler, B.J.4    Ninet, B.5    Hirschel, B.6    Emler, S.7
  • 33
    • 0037316861 scopus 로고    scopus 로고
    • Phylogeny of the genus Nocardia based on reassessed 16S rRNA gene sequences reveals underspeciation and division of strains classified as Nocardia asteroides into three established species and two unnamed taxons
    • Roth, A., Andrees, S., Kroppenstedt, R. M., Harmsen, D., Mauch, H.: Phylogeny of the genus Nocardia based on reassessed 16S rRNA gene sequences reveals underspeciation and division of strains classified as Nocardia asteroides into three established species and two unnamed taxons. J. Clin. Microbiol. 41, 851-856 (2003).
    • (2003) J. Clin. Microbiol. , vol.41 , pp. 851-856
    • Roth, A.1    Andrees, S.2    Kroppenstedt, R.M.3    Harmsen, D.4    Mauch, H.5
  • 35
    • 0026725762 scopus 로고
    • Actinomycete infections in humans - A review
    • Schaal, K. P., Lee, H. J.: Actinomycete infections in humans - a review. Gene 115, 201-211 (1992).
    • (1992) Gene , vol.115 , pp. 201-211
    • Schaal, K.P.1    Lee, H.J.2
  • 36
    • 0028839380 scopus 로고
    • 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
    • Steingrube, V. A., Brown, B. A., Gibson, J. L., Wilson, R. W., Brown, J., Blacklock, Z., Jost, K., Locke, S., Ulrich, R. F., Wallace, R. J.: 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 (1995).
    • (1995) J. Clin. Microbiol. , vol.33 , pp. 3096-3101
    • Steingrube, V.A.1    Brown, B.A.2    Gibson, J.L.3    Wilson, R.W.4    Brown, J.5    Blacklock, Z.6    Jost, K.7    Locke, S.8    Ulrich, R.F.9    Wallace, R.J.10
  • 37
    • 0030975490 scopus 로고    scopus 로고
    • Rapid identification of clinically significant species and taxa of aerobic actinomycetes, including Actinomadura, Gordona, Nocardia, Rhodococcus, Streptomyces, and Tsukamurella isolates, by DNA amplification and restriction endonuclease analysis
    • Steingrube, V. A., Wilson, R. W., Brown, B. A., Jost, K. C. J., Blacklock, Z., Gibson, J. L., Wallace, R. J.: Rapid identification of 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 (1997).
    • (1997) J. Clin. Microbiol. , vol.35 , pp. 817-822
    • Steingrube, V.A.1    Wilson, R.W.2    Brown, B.A.3    Jost, K.C.J.4    Blacklock, Z.5    Gibson, J.L.6    Wallace, R.J.7
  • 38
    • 0031784307 scopus 로고    scopus 로고
    • Comparison of phenotypic and genotypic techniques for identification of unusual aerobic pathogenic gram-negative bacilli
    • Tang, Y. W., Ellis, N. M., Hopkins, M. K., Smith, D. H., Dodge, D. E., Persing, D. H.: Comparison of phenotypic and genotypic techniques for identification of unusual aerobic pathogenic gram-negative bacilli. J. Clin. Microbiol. 36, 3674-3679 (1998).
    • (1998) J. Clin. Microbiol. , vol.36 , pp. 3674-3679
    • Tang, Y.W.1    Ellis, N.M.2    Hopkins, M.K.3    Smith, D.H.4    Dodge, D.E.5    Persing, D.H.6
  • 39
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Thompson, J. D., Higgins, D. G., Gibson, T. J.: CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22, 4673-4680 (1994).
    • (1994) Nucleic Acids Res. , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 40
    • 0034808006 scopus 로고    scopus 로고
    • Evaluation of E test, disk diffusion and broth microdilution to establish tentative quality control limits and review susceptibility breakpoints for two aerobic actinomycetes
    • Tomlin, P., Sand, C., Rennie, R. P.: Evaluation of E test, disk diffusion and broth microdilution to establish tentative quality control limits and review susceptibility breakpoints for two aerobic actinomycetes. Diagn. Microbiol. Infect. Dis. 40, 179-186 (2001).
    • (2001) Diagn. Microbiol. Infect. Dis. , vol.40 , pp. 179-186
    • Tomlin, P.1    Sand, C.2    Rennie, R.P.3
  • 41
    • 0034798093 scopus 로고    scopus 로고
    • Necessity of quality-controlled 16S rRNA gene sequence databases: Identifying nontuberculous Mycobacterium species
    • Turenne, C. Y., Tschetter, L., Wolfe, J., Kabani, A.: Necessity of quality-controlled 16S rRNA gene sequence databases: identifying nontuberculous Mycobacterium species. J. Clin. Microbiol. 39, 3637-3648 (2001).
    • (2001) J. Clin. Microbiol. , vol.39 , pp. 3637-3648
    • Turenne, C.Y.1    Tschetter, L.2    Wolfe, J.3    Kabani, A.4
  • 45
    • 0023694766 scopus 로고
    • Susceptibility testing of Nocardia species for the clinical laboratory
    • Wallace, R. J., Steele, L. C.: Susceptibility testing of Nocardia species for the clinical laboratory. Diagn. Microbiol. Infect. Dis. 9, 155-166 (1988).
    • (1988) Diagn. Microbiol. Infect. Dis. , vol.9 , pp. 155-166
    • Wallace, R.J.1    Steele, L.C.2
  • 46
    • 0025224975 scopus 로고
    • Cefotaxime-resistant Nocardia asteroides strains are isolates of the controversial species Nocardia farcinica
    • Wallace, R. J., Tsukamura, M., Brown, B. A., Brown, J., Steingrube, V. A., Zhang, Y. S., Nash, D. R.: Cefotaxime-resistant Nocardia asteroides strains are isolates of the controversial species Nocardia farcinica. J. Clin. Microbiol. 28, 2726-2732 (1990).
    • (1990) J. Clin. Microbiol. , vol.28 , pp. 2726-2732
    • Wallace, R.J.1    Tsukamura, M.2    Brown, B.A.3    Brown, J.4    Steingrube, V.A.5    Zhang, Y.S.6    Nash, D.R.7
  • 47
    • 0023184331 scopus 로고
    • Bacterial evolution
    • Woese, C. R.: Bacterial evolution. Microbiol. Rev. 2, 221-271 (1987).
    • (1987) Microbiol. Rev. , vol.2 , pp. 221-271
    • Woese, C.R.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.