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

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

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

Tortoli E. The new mycobacteria: an update. FEMS Immunol.Med.Microbiol. 48:159-178, 2006.

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.