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Identification of Mycobacteria - Genotypic Methods (Coordinators: E. Richter, V.Ø. Thomsen)

click here to read the paper Adékambi T., Colson P., Drancourt M. rpoB -based identification of nonpigmented and late-pigmenting rapidly growing mycobacteria. J.Clin.Microbiol. 41:5699-5708, 2003.

click here to read the paper Adékambi T., Stein A., Carvajal J., Raoult D., Drancourt M. Description of Mycobacterium conceptionense sp. nov., a Mycobacterium fortuitum group organism isolated from a postraumatic osteitis inflammation. J.Clin.Microbiol. 44:1268-1273, 2006.

click here to read the paper Adékambi T., Berger P., Raoult D., Drancourt M. rpoB gene sequence-based characterization of emerging non-tuberculous mycobacteria with descriptions of Mycobacterium bollettii  sp. nov., Mycobacterium phocaicum sp. nov. and Mycobacterium aubagnense sp. nov. Int.J.Syst.Evol.Microbiol. 56:133-143, 2006.

click here to read the paper Böddinghaus B., Rogall T., Flohr T., Blöcker H., Böttger E.C. Detection and identification of mycobacteria by amplification of rRNA. J.Clin.Microbiol. 28:1751-1759, 1990.

click here to read the paper Brunello F., Ligozzi M., Cristelli E., Bonora S., Tortoli E., Fontana R. Identification of 54 mycobacterial species by PCR-restriction fragment length polymorphism analysis of the hsp65 gene. J.Clin.Microbiol. 39:2799-2806, 2001.

click here to read the paper Clarridge J.E., III. Impact of 16S rRNA gene sequence analysis for identification of bacteria on clinical microbiology and infectious diseases. Clin.Microbiol.Rev. 17:840-862, 2004.

click here to read the paper 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.

click here to read the paper Cook V.J., Turenne C.Y., Wolfe J., Pauls R., Kabani A. Conventional methods versus 16S ribosomal DNA sequencing for. J.Clin.Microbiol. 41:1010-1015, 2003.

click here to read the paper Devallois A., Goh K.S., Rastogi N. Rapid identification of mycobacteria to species level by PCR-restriction fragment length polymorphism analysis of the hsp65 gene and proposition of an algorithm to differentiate 34 mycobacterial species. J.Clin.Microbiol. 35:2969-2973, 1997.

click here to read the paper Devulder G., Pérouse de Montclos M., Flandrois J.P. A multigene approach to phylogenetic analysis using the genus Mycobacterium as a model. Int.J.Syst.Evol.Microbiol. 55:293-302, 2005.

click here to read the paper Doig C., Seagar A.L., Watt B., Forbes K.J. The efficacy of the heat killing of Mycobacterium tuberculosis. J.Clin.Pathol. 55:778-779, 2002.

click here to read the paper Gitti Z., Neonakis I., Fanti G., Kontos F., Maraki S., Tselentis Y. Use of the GenoType Mycobacterium CM and AS assays to analyze 76 nontuberculous mycobacterial isolates from Greece. J.Clin.Microbiol. 44:2244-2246, 2004.

click here to read the paper Harmsen D., Dostal S., Roth A., Niemann S., Rothganger J., Sammeth M., Albert J., Frosch M., Richter E. RIDOM: Comprehensive and public sequence database for identification of Mycobacterium species. BMC Infect.Dis. 3:26, 2003.

click here to read the paper Hall L., Doerr K.A., Wohlfiel S.L., Roberts G.D. Evaluation of the MicroSeq system for identification of mycobacteria by 16S ribosomal DNA sequencing and its integration into a routine clinical mycobacteriology laboratory. J.Clin.Microbiol. 41:1447-1453, 2003.

click here to read the paper Kamerbeek J., Schouls L., Kolk A., van Agterveld M., van Soolingen D., Kuijper S., Bunschoten A., Molhuizen H., Shaw R., Goyal M., van Embden J. Simultaneous detection and strain differentiation of Mycobacterium tuberculosis for diagnosis and epidemiology. J.Clin.Microbiol. 35:907-914, 1997.

click here to read the paper Kasai H., Ezaki T., Harayama S. Differentiation of phylogenetically related slowly growing mycobacteria by their girB sequences. J.Clin.Microbiol. 38:301-308, 2000.

click here to read the paper Kim B.J., Lee S.H., Lyu M.A., Kim S.J., Bai G.H., Kim S.J., Chae G.T., Kim E.C., Cha C.Y., Kook Y.H. Identification of mycobacterial species by comparative sequence analysis of the RNA polymerase gene rpo B. J.Clin.Microbiol. 37:1714-1720, 1999.

click here to read the paper Leão S.C., Martin, A., Mejia G.I., Palomino J.C., Robledo, J., Telles M.A.S., Portaels F. Practical handbook for the phenotypic and genotypic identification of mycobacteria. 2005.

click here to read the paper Lebrun L., Espinasse F., Poveda J.D., Vincent Lévy-Frébault V. Evaluation of nonradioactive DNA probes for identification of mycobacteria. J.Clin.Microbiol. 30:2476-2478, 1992.

click here to read the paper Makinen J., Sarkola A., Marjamaki M., Viljanen M.K., Soini H. Evaluation of GenoType and LiPA MYCOBACTERIA assays for identification of Finnish mycobacterial isolates. J.Clin.Microbiol. 40:3478-3481, 2002.

click here to read the paper Makinen J., Marjamaki M., Martilla H.J., Soini H. Evaluation of a novel strip test, GenoType Mycobacterium CM/AS, for species identification of mycobacterial cultures. J.Clin.Microbiol. 12:481-483, 2006.

click here to read the paper McNabb A., Adie K., Rodrigues M., Black W.A., Isaac-Renton J. Direct identification of mycobacteria in primary liquid detection media by partial sequencing of the 65-kilodalton heat shock protein gene. J.Clin.Microbiol. 44:60-66, 2006.

click here to read the paper McNabb A., Eisler D., Adie K., Amos M., Rodrigues M., Stephens G., Black W.A., Isaac-Renton J. Assessment of partial sequencing of the 65-kiloDalton heat shock protein gene (hsp65) for routine identification of mycobacterium species isolated from clinical sources. J.Clin.Microbiol. 42:3000-3011, 2004.

click here to read the paper Mijs W., De Vreese K., Devos A., Pottel H., Valgaeren A., Evans C., Norton J., Parker D., Rigouts L., Portaels F., Reischl U., Watterson S., Pfyffer G., Rossau R. Evaluation of a commercial line probe assay for identification of Mycobacterium species from liquid and solid culture. Eur.J.Clin.Microbiol.Infect.Dis. 21:794-802, 2002.

click here to read the paper Padilla E., Gonzalez V., Manterola J.M., Perez A., Quesada M.D., Gordillo S., Vilaplana C., Pallares A., Molinos S., Sanchez M.D., Ausina V. Comparative evaluation of the new version of the INNO-LiPA Mycobacteria and genotype Mycobacterium assays for identification of Mycobacterium species from MB/BacT liquid cultures artificially inoculated with Mycobacterial strains. J.Clin.Microbiol. 42:3383-3088, 2004.

click here to read the paper Patel J.B., Leonard D.G.B., 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.

click here to read the paper Richter E., Weizenegger M., Rüsch-Gerdes S., Niemann S. Evaluation of GenoType MTBC assay for differentiation of clinical Mycobacterium tuberculosis complex isolates. J.Clin.Microbiol. 41:2672-2675, 2003.

click here to read the paper Richter E., Weizenegger M., Fahr A.M., Rüsch-Gerdes S. Usefulness of the GenoType MTBC assay for differentiating species of the Mycobacterium tuberculosis complex in cultures obtained from clinical specimens. J.Clin.Microbiol. 42:4303-4306, 2004.

click here to read the paper Richter E., Rusch-Gerdes S., Hillemann D. Evaluation of the GenoType Mycobacterium assay for identification of mycobacterial species from cultures. Antimicrob.Agents Chemother. 44:1769-1775, 2006.

click here to read the paper Roth A., Fisher M., Hamid M.E., Michalke S., Ludwig W., Mauch H. Differentiation of phylogenetically related slowly growing mycobacteria based on 16S-23S rRNA gene internal transcribed spacer sequences. J.Clin.Microbiol. 36:139-147, 1998.

click here to read the paper Scarparo C., Piccoli P., Rigon A., Ruggiero G., Nista D., Piersimoni C. Direct identification of mycobacteria from MB/BacT Alert 3D bottles: comparative evaluation of two commercial probe assays. J.Clin.Microbiol. 39:3222-3227, 2001.

click here to read the paper Springer B., Stockman L., Teschner K., Roberts G.D., Böttger E.C. Two-laboratory collaborative study on identification of mycobacteria: molecular versus phenotypic methods. J.Clin.Microbiol. 34:296-303, 1996.

click here to read the paper Suffys P.N., da Silva Rocha A., de Oliveira M., Dias Campos C.E., Werneck Barreto A.M., Portaels F., Rigouts L., Wouters G., Jannes G., van Reybroeck G., Mijs W., Vanderborght B. Rapid identification of mycobacteria to the species level using INNO-LiPA Mycobacteria, a reverse hybridization assay. J.Clin.Microbiol. 39:4477-4482, 2001.

click here to read the paper Telenti A., Marchesi F., Balz M., Bally F., Böttger E.C., Bodmer T. Rapid identification of mycobacteria to the species level by polymerase chain reaction and restriction enzyme analysis. J.Clin.Microbiol. 31:175-178, 1993.

click here to read the paper Tortoli E., Nanetti A., Piersimoni C., Cichero P., Farina C., Mucignat G., Scarparo C., Bartolini L., Valentini R., Nista D., Gesu G., Passerini Tosi C., Crovatto M., Brusarosco G. Performance assessment of new multiplex probe assay for identification of mycobacteria. J.Clin.Microbiol. 39:1079-1084, 2001.

click here to read the paper Tortoli E., Mariottini A., Mazzarelli G. Evaluation of INNO-LiPA MYCOBACTERIA v2: improved reverse hybridization multiple DNA probe assay for mycobacterial identification. J.Clin.Microbiol. 41:4418-4420, 2003.

click here to read the paper Tortoli E. The new mycobacteria: an update. FEMS Immunol.Med.Microbiol. 48:159-178, 2006.

click here to read the paper 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.