1887

Abstract

The complex (MAC) comprises slowly growing mycobacteria responsible for opportunistic infections and zoonoses. The ability to speciate MAC isolates in the clinical microbiology laboratory is critical for determining the organism implicated in clinical disease and for epidemiological investigation of the source of infection. Investigation of a 711 bp variable fragment of flanked by the Myco-F/Myco-R primers found a 0.7–5.1 % divergence among MAC reference strains, with and being the most closely related. Using a 0.7 % divergence cut-off, 83 % of 100 clinical isolates, which had been previously identified by phenotypic characteristics and 16S–23S rDNA intergenic spacer (ITS) probing, were identified as , 8 % as and 2 % as . The uniqueness of seven isolates, exhibiting <99.3 % sequence similarity with MAC reference strains, was confirmed by 16S rDNA, ITS and sequencing and phylogenetic analyses. Partial gene sequencing using the Myco-F/Myco-R primers permits one-step identification of MAC isolates at the species level and the detection of potentially novel MAC species.

Loading

Article metrics loading...

/content/journal/micro/10.1099/mic.0.2008/020164-0
2008-12-01
2020-04-05
Loading full text...

Full text loading...

/deliver/fulltext/micro/154/12/3715.html?itemId=/content/journal/micro/10.1099/mic.0.2008/020164-0&mimeType=html&fmt=ahah

References

  1. Abed Y., Bollet C., de Micco P.. 1995; Identification and strain differentiation of Mycobacterium species on the basis of DNA 16S–23S spacer region polymorphism. Res Microbiol146:405–413
    [Google Scholar]
  2. Adékambi T., Colson P., Drancourt M.. 2003; rpoB-based identification of nonpigmented and late-pigmenting rapidly growing mycobacteria. J Clin Microbiol41:5699–5708
    [Google Scholar]
  3. Barry T., Colleran G., Glennon M., Dunican L. K., Gannon F.. 1991; The 16s/23s ribosomal spacer region as a target for DNA probes to identify eubacteria. PCR Methods Appl1:51–56
    [Google Scholar]
  4. Blackwood K. S., He C., Gunton J., Turenne C. Y., Wolfe J., Kabani A. M.. 2000; Evaluation of recA sequences for identification of Mycobacterium species. J Clin Microbiol38:2846–2852
    [Google Scholar]
  5. Colson P., Tamalet C., Raoult D.. 2006; SVARAP and aSVARAP: simple tools for quantitative analysis of nucleotide and amino acid variability and primer selection for clinical microbiology. BMC Microbiol6:21
    [Google Scholar]
  6. Devallois A., Picardeau M., Goh K. S., Sola C., Vincent V., Rastogi N.. 1996; Comparative evaluation of PCR and commercial DNA probes for detection and identification to species level of Mycobacterium avium and Mycobacterium intracellulare. J Clin Microbiol34:2756–2759
    [Google Scholar]
  7. Devulder G., Pérouse de Montclos M., Flandrois J. P.. 2005; A multigene approach to phylogenetic analysis using the genus Mycobacterium as a model. Int J Syst Evol Microbiol55:293–302
    [Google Scholar]
  8. Djelouagji Z., Drancourt M.. 2006; Inactivation of cultured Mycobacterium tuberculosis organisms prior to DNA extraction. J Clin Microbiol44:1594–1595
    [Google Scholar]
  9. Esparcia Ó., Navarro F., Quer M., Coll P.. 2008; Lymphadenopathy caused by Mycobacterium colombiense. J Clin Microbiol46:1885–1887
    [Google Scholar]
  10. Frothingham R., Wilson K. H.. 1993; Sequence-based differentiation of strains in the Mycobacterium avium complex. J Bacteriol175:2818–2825
    [Google Scholar]
  11. Gingeras T. R., Ghandour G., Wang E., Berno A., Small P. M., Drobniewski F., Alland D., Desmond E., Holodniy M., Drenkow J.. 1998; Simultaneous genotyping and species identification using hybridization pattern recognition analysis of generic Mycobacterium DNA arrays. Genome Res8:435–448
    [Google Scholar]
  12. Glennon M., Smith T., Cormican M., Noone D., Barry T., Maher M., Dawson M., Gilmartin J. J., Gannon F.. 1994; The ribosomal intergenic spacer region: a target for the PCR based diagnosis of tuberculosis. Tuber Lung Dis75:353–360
    [Google Scholar]
  13. Karakousis P. C., Moore R. D., Chaisson R. E.. 2004; Mycobacterium avium complex in patients with HIV infection in the era of highly active antiretroviral therapy. Lancet Infect Dis4:557–565
    [Google Scholar]
  14. Kasai H., Ezaki T., Harayama S.. 2000; Differentiation of phylogenetically related slowly growing mycobacteria by their gyrB sequences. J Clin Microbiol38:301–308
    [Google Scholar]
  15. Kim B. J., Lee S. H., Lyu M. A., Kim S. J., Bai G. H., Chae G. T., Kim E. C., Cha C. Y., Kook Y. H.. 1999; Identification of mycobacterial species by comparative sequence analysis of the RNA polymerase gene ( rpoB. J Clin Microbiol37:1714–1720
    [Google Scholar]
  16. Kim B. J., Lee K. H., Park B. N., Kim S. J., Bai G. H., Kim S. J., Kook Y. H.. 2001; Differentiation of mycobacterial species by PCR-restriction analysis of DNA (342 base pairs) of the RNA polymerase gene ( rpoB). J Clin Microbiol39:2102–2109
    [Google Scholar]
  17. Kumar S., Tamura K., Nei M.. 2004; mega3: integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment. Brief Bioinform5:150–163
    [Google Scholar]
  18. Lauzi S., Pasotto D., Amadori M., Archetti I. L., Poli G., Bonizzi L.. 2000; Evaluation of the specificity of the gamma-interferon test in Italian bovine tuberculosis-free herds. Vet J160:17–24
    [Google Scholar]
  19. Leao S. C., Briones M. R., Sircili M. P., Balian S. C., Mores N., Ferreira-Neto J. S.. 1999; Identification of two novel Mycobacterium avium allelic variants in pig and human isolates from Brazil by PCR-restriction enzyme analysis. J Clin Microbiol37:2592–2597
    [Google Scholar]
  20. Lebrun L., Weill F. X., Lafendi L., Houriez F., Casanova F., Gutierrez M. C., Ingrand D., Lagrange P., Vincent V., Herrmann J. L.. 2005; Use of the INNO-LiPA-MYCOBACTERIA assay (version 2) for identification of Mycobacterium avium-- Mycobacterium intracellulare-- Mycobacterium scrofulaceum complex isolates. J Clin Microbiol43:2567–2574
    [Google Scholar]
  21. Liu X., Feng Z., Harris N. B., Cirillo J. D., Bercovier H., Barletta R. G.. 2001; Identification of a secreted superoxide dismutase in Mycobacterium avium ssp. paratuberculosis. FEMS Microbiol Lett202:233–238
    [Google Scholar]
  22. Mijs W., de Haas P., Rossau R., Van der Laan T., Rigouts L., Portaels F., van Soolingen D.. 2002; Molecular evidence to support a proposal to reserve the designation Mycobacterium avium subsp. avium for bird-type isolates and ‘ M.avium subsp. hominissuis’ for the human/porcine type of M. avium. Int J Syst Evol Microbiol52:1505–1518
    [Google Scholar]
  23. Morita Y., Maruyama S., Kabeya H., Nagai A., Kozawa K., Kato M., Nakajima T., Mikami T., Katsube Y., Kimura H.. 2004; Genetic diversity of the dnaJ gene in the Mycobacterium avium complex. J Med Microbiol53:813–817
    [Google Scholar]
  24. Murcia M. I., Tortoli E., Menendez M. C., Palenque E., Garcia M. J.. 2006; Mycobacterium colombiense sp. nov., a novel member of the Mycobacterium avium complex and description of MAC-X as a new ITS genetic variant. Int J Syst Evol Microbiol56:2049–2054
    [Google Scholar]
  25. Roth A., Fischer M., Hamid M. E., Michalke S., Ludwig W., Mauch H.. 1998; Differentiation of phylogenetically related slowly growing mycobacteria based on 16S–23S rRNA gene internal transcribed spacer sequences. J Clin Microbiol36:139–147
    [Google Scholar]
  26. Soini H., Agha S. A., El-Fiky A., Viljanen M. K.. 1996; Comparison of amplicor and 32-kilodalton PCR for detection of Mycobacterium tuberculosis from sputum specimens. J Clin Microbiol34:1829–1830
    [Google Scholar]
  27. Swanson D. S., Kapur V., Stockbauer K., Pan X., Frothingham R., Musser J. M.. 1997; Subspecific differentiation of Mycobacterium avium complex strains by automated sequencing of a region of the gene ( hsp65) encoding a 65-kilodalton heat shock protein. Int J Syst Bacteriol47:414–419
    [Google Scholar]
  28. 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 Microbiol31:175–178
    [Google Scholar]
  29. Thierry D., Bauge S., Poveda J. D., Vincent V., Guesdon J. L.. 1993; Rapid identification of Mycobacterium avium-intracellulare complex strains: clinical practice evaluation of DT6 and DT1 probes.>. J Infect Dis168:1337–1338
    [Google Scholar]
  30. Thorel M. F., Krichevsky M., Levy-Frebault V. V.. 1990; Numerical taxonomy of mycobactin-dependent mycobacteria, emended description of Mycobacterium avium, and description of Mycobacterium avium subsp. avium subsp. nov., Mycobacterium avium subsp. paratuberculosis subsp. nov., and Mycobacterium avium subsp. silvaticum subsp. nov. Int J Syst Bacteriol40:254–260
    [Google Scholar]
  31. Tortoli E., Cichero P., Piersimoni C., Simonetti M. T., Gesu G., Nista D.. 1999; Use of BACTEC MGIT 960 for recovery of mycobacteria from clinical specimens: multicenter study. J Clin Microbiol37:3578–3582
    [Google Scholar]
  32. Tortoli E., Mariottini A., Mazzarelli G.. 2003; Evaluation of INNO-LiPA MYCOBACTERIA v2: improved reverse hybridization multiple DNA probe assay for mycobacterial identification. J Clin Microbiol41:4418–4420
    [Google Scholar]
  33. Tortoli E., Rindi L., Garcia M. J., Chiaradonna P., Dei R., Garzelli C., Kroppenstedt R. M., Lari N., Mattei R.. other authors 2004; Proposal to elevate the genetic variant MAC-A, included in the Mycobacterium avium complex, to species rank as Mycobacterium chimaera sp. nov. Int J Syst Evol Microbiol54:1277–1285
    [Google Scholar]
  34. Turenne C. Y., Semret M., Cousins D. V., Collins D. M., Behr M. A.. 2006; Sequencing of hsp65 distinguishes among subsets of the Mycobacterium avium complex. J Clin Microbiol44:433–440
    [Google Scholar]
  35. Turenne C. Y., Wallace R. Jr, Behr M. A.. 2007; Mycobacterium avium in the postgenomic era. Clin Microbiol Rev20:205–229
    [Google Scholar]
  36. Woese C. R.. 1987; Bacterial evolution. Microbiol Rev51:221–271
    [Google Scholar]
  37. Yajko D. M., Chin D. P., Gonzalez P. C., Nassos P. S., Hopewell P. C., Reingold A. L., Horsburgh C. R. Jr, Yakrus M. A., Ostroff S. M., Hadley W. K.. 1995; Mycobacterium avium complex in water, food, and soil samples collected from the environment of HIV-infected individuals. J Acquir Immune Defic Syndr Hum Retrovirol9:176–182
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/micro/10.1099/mic.0.2008/020164-0
Loading
/content/journal/micro/10.1099/mic.0.2008/020164-0
Loading

Data & Media loading...

Most cited this month

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error