1887

Abstract

In this study, nonchromogenic mycobacteria were isolated from pulmonary samples of three patients in the Netherlands. All isolates had identical, unique 16S rRNA gene and 16S–23S ITS sequences, which were closely related to those of and . The biochemical features of the isolates differed slightly from those of , suggesting that the isolates may represent a possible separate species within the complex (MAC). However, the cell-wall mycolic acid pattern, analysed by HPLC, and the partial sequences of the and genes were identical to those of . We concluded that the isolates represent a novel variant of . The results of this analysis have led us to question the currently used methods of species definition for members of the genus , which are based largely on 16S rRNA or gene sequencing. Definitions based on a single genetic target are likely to be insufficient. Genetic divergence, especially in the MAC, yields strains that cannot be confidently assigned to a specific species based on the analysis of a single genetic target.

Loading

Article metrics loading...

/content/journal/jmm/10.1099/jmm.0.045070-0
2012-09-01
2019-10-19
Loading full text...

Full text loading...

/deliver/fulltext/jmm/61/9/1234.html?itemId=/content/journal/jmm/10.1099/jmm.0.045070-0&mimeType=html&fmt=ahah

References

  1. Adékambi T., Berger P., Raoult D., Drancourt M.. ( 2006;). rpoB gene sequence-based characterization of emerging non-tuberculous mycobacteria with descriptions of Mycobacterium bolletii sp. nov., Mycobacterium phocaicum sp. nov. and Mycobacterium aubagnense sp. nov.. Int J Syst Evol Microbiol 56:, 133–143. [CrossRef][PubMed]
    [Google Scholar]
  2. Ben Salah I., Adékambi T., Raoult D., Drancourt M.. ( 2008;). rpoB sequence-based identification of Mycobacterium avium complex species. . Microbiology 154:, 3715–3723. [CrossRef][PubMed]
    [Google Scholar]
  3. Ben Salah I., Cayrou C., Raoult D., Drancourt M.. ( 2009;). Mycobacterium marseillense sp. nov., Mycobacterium timonense sp. nov. and Mycobacterium bouchedurhonense sp. nov., members of the Mycobacterium avium complex. . Int J Syst Evol Microbiol 59:, 2803–2808. [CrossRef][PubMed]
    [Google Scholar]
  4. CDC ( 1996;). Standardized method for HPLC identification of mycobacteria. Atlanta, GA:: US Department of Health and Human Services, Public Health Service;.
    [Google Scholar]
  5. Frothingham R., Wilson K. H.. ( 1993;). Sequence-based differentiation of strains in the Mycobacterium avium complex. . J Bacteriol 175:, 2818–2825.[PubMed]
    [Google Scholar]
  6. Griffith D. E., Aksamit T., Brown-Elliott B. A., Catanzaro A., Daley C., Gordin F., Holland S. M., Horsburgh R., Huitt G.. & other authors ( 2007;). An official ATS/IDSA statement: diagnosis, treatment, and prevention of nontuberculous mycobacterial diseases. . Am J Respir Crit Care Med 175:, 367–416. [CrossRef][PubMed]
    [Google Scholar]
  7. Hamid M. E., Roth A., Landt O., Kroppenstedt R. M., Goodfellow M., Mauch H.. ( 2002;). Differentiation between Mycobacterium farcinogenes and Mycobacterium senegalense strains based on 16S-23S ribosomal DNA internal transcribed spacer sequences. . J Clin Microbiol 40:, 707–711. [CrossRef][PubMed]
    [Google Scholar]
  8. Huson D. H., Bryant D.. ( 2006;). Application of phylogenetic networks in evolutionary studies. . Mol Biol Evol 23:, 254–267. [CrossRef][PubMed]
    [Google Scholar]
  9. Kent P. T., Kubica G. P.. ( 1985;). Public Health Mycobacteriology. A Guide for the Level III Laboratory. Atlanta, GA:: US Department of Health and Human Services;.
    [Google Scholar]
  10. 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 aviumMycobacterium intracellulareMycobacterium scrofulaceum complex isolates. . J Clin Microbiol 43:, 2567–2574. [CrossRef][PubMed]
    [Google Scholar]
  11. 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 Microbiol 56:, 2049–2054. [CrossRef][PubMed]
    [Google Scholar]
  12. Park J. H., Shim T. S., Lee S. A., Lee H., Lee I. K., Kim K., Kook Y. H., Kim B. J.. ( 2010;). Molecular characterization of Mycobacterium intracellulare-related strains based on the sequence analysis of hsp65, internal transcribed spacer and 16S rRNA genes. . J Med Microbiol 59:, 1037–1043. [CrossRef][PubMed]
    [Google Scholar]
  13. 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 Microbiol 36:, 139–147.[PubMed]
    [Google Scholar]
  14. Schweickert B., Goldenberg O., Richter E., Göbel U. B., Petrich A., Buchholz P., Moter A.. ( 2008;). Occurrence and clinical relevance of Mycobacterium chimaera sp. nov., Germany. . Emerg Infect Dis 14:, 1443–1446. [CrossRef][PubMed]
    [Google Scholar]
  15. Springer B., Stockman L., Teschner K., Roberts G. D., Böttger E. C.. ( 1996;). Two-laboratory collaborative study on identification of mycobacteria: molecular versus phenotypic methods. . J Clin Microbiol 34:, 296–303.[PubMed]
    [Google Scholar]
  16. Stackebrandt E., Frederiksen W., Garrity G. M., Grimont P. A., Kämpfer P., Maiden M. C., Nesme X., Rosselló-Mora R., Swings J.. & other authors ( 2002;). Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. . Int J Syst Evol Microbiol 52:, 1043–1047. [CrossRef][PubMed]
    [Google Scholar]
  17. Tamura K., Dudley J., Nei M., Kumar S.. ( 2007;). mega4: molecular evolutionary genetics analysis (mega) software version 4.0. . Mol Biol Evol 24:, 1596–1599. [CrossRef][PubMed]
    [Google Scholar]
  18. Telenti A., Marchesi F., Balz M., Bally F., Böttger 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.[PubMed]
    [Google Scholar]
  19. Thompson J. D., Gibson T. J., Plewniak F., Jeanmougin F., Higgins D. G.. ( 1997;). The clustal_x windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. . Nucleic Acids Res 25:, 4876–4882. [CrossRef][PubMed]
    [Google Scholar]
  20. 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 Microbiol 54:, 1277–1285. [CrossRef][PubMed]
    [Google Scholar]
  21. Turenne C. Y., Collins D. M., Alexander D. C., Behr M. A.. ( 2008;). Mycobacterium avium subsp. paratuberculosis and M. avium subsp. avium are independently evolved pathogenic clones of a much broader group of M. avium organisms. . J Bacteriol 190:, 2479–2487. [CrossRef][PubMed]
    [Google Scholar]
  22. van Ingen J., Boeree M. J., Kösters K., Wieland A., Tortoli E., Dekhuijzen P. N. R., van Soolingen D.. ( 2009a;). Proposal to elevate Mycobacterium avium complex ITS sequevar MAC-Q to Mycobacterium vulneris sp. nov.. Int J Syst Evol Microbiol 59:, 2277–2282. [CrossRef][PubMed]
    [Google Scholar]
  23. van Ingen J., Bendien S. A., de Lange W. C. M., Hoefsloot W., Dekhuijzen P. N. R., Boeree M. J., van Soolingen D.. ( 2009b;). Clinical relevance of non-tuberculous mycobacteria isolated in the Nijmegen-Arnhem region, The Netherlands. . Thorax 64:, 502–506. [CrossRef][PubMed]
    [Google Scholar]
  24. van Ingen J., van der Laan T., Dekhuijzen R., Boeree M. J., van Soolingen D.. ( 2010;). In vitro drug susceptibility of 2275 clinical non-tuberculous Mycobacterium isolates of 49 species in The Netherlands. . Int J Antimicrob Agents 35:, 169–173. [CrossRef][PubMed]
    [Google Scholar]
  25. Zelazny A. M., Root J. M., Shea Y. R., Colombo R. E., Shamputa I. C., Stock F., Conlan S., McNulty S., Brown-Elliott B. A.. & other authors ( 2009;). Cohort study of molecular identification and typing of Mycobacterium abscessus, Mycobacterium massiliense, and Mycobacterium bolletii. . J Clin Microbiol 47:, 1985–1995. [CrossRef][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/jmm/10.1099/jmm.0.045070-0
Loading
/content/journal/jmm/10.1099/jmm.0.045070-0
Loading

Data & Media loading...

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