1887

Abstract

Five independent strains, isolated from clinical samples but probably not responsible for disease, revealed phenotypic and genotypic features that appeared to exclude their belonging to any of the recognized species. The strains, which are non-pigmented rapid growers, presented a cell-wall lipid pattern resembling those of and . Sequencing of the 16S rRNA, and genes and the 16S–23S rRNA gene internal transcribed spacer (ITS) revealed that the strains are clearly distinct from every other species. While the 16S rRNA and genes were characterized by a single sequevar, two sequevars were detected in and three in the ITS. The divergence shown in the latter region was striking, in which only two short regions (less than 150 bp in all) were comparable with other mycobacteria, apart from and . The PCR restriction analysis pattern of the novel strains also differs from any reported to date. The name sp. nov. is proposed for the novel species; the type strain is FI-06250 (=DSM 45132 =CIP 109609).

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2009-06-01
2024-03-28
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References

  1. Adékambi, T. & Drancourt, M.(2004). Dissection of phylogenetic relationships among 19 rapidly growing Mycobacterium species by 16S rRNA, hsp65, sodA, recA and rpoB gene sequencing. Int J Syst Evol Microbiol 54, 2095–2105.[CrossRef] [Google Scholar]
  2. Adékambi, T., Colson, P. & Drancourt, M.(2003).rpoB-based identification of nonpigmented and late-pigmenting rapidly growing mycobacteria. J Clin Microbiol 41, 5699–5708.[CrossRef] [Google Scholar]
  3. Böttger, E. C.(1996). Approaches for identification of microorganisms. Despite longer experience with fatty acid profiles, DNA-based analysis offers several advantages. ASM News 62, 247–250. [Google Scholar]
  4. Butler, W. R. & Kilburn, J. O.(1988). Identification of major slowly growing pathogenic mycobacteria and Mycobacterium gordonae by high-performance liquid chromatography of their mycolic acids. J Clin Microbiol 26, 50–53. [Google Scholar]
  5. Drancourt, M. & Raoult, D.(2005). Sequence-based identification of new bacteria: a proposition for creation of an orphan bacterium repository. J Clin Microbiol 43, 4311–4315.[CrossRef] [Google Scholar]
  6. Griffith, D. E., Aksamit, T., Brown-Elliott, B. A., Catanzarro, A., Daley, C., Gordin, F., Holland, S. M., Horsburg, 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] [Google Scholar]
  7. Hall, L., Doerr, K. A., Wohlfiel, S. L. & Roberts, G. D.(2003). 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.[CrossRef] [Google Scholar]
  8. 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.
  9. McNabb, A., Eisler, D., Adie, K., Amos, M., Rodrigues, M., Stephens, G., Black, W. A. & Isaac-Renton, J.(2004). 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.[CrossRef] [Google Scholar]
  10. Minnikin, D. E., Al-Shamaony, L. & Goodfellow, M.(1975). Differentiation of Mycobacterium, Nocardia, and related taxa by thin-layer chromatographic analysis of whole-organism methanolysates. J Gen Microbiol 88, 200–204.[CrossRef] [Google Scholar]
  11. NCCLS(2003).Susceptibility testing for mycobacteria, nocardiae and other aerobic actinomycetes. Approved standard M24-A. Wayne, PA: National Committee for Clinical Laboratory Standards.
  12. Reischl, U., Emler, S., Horak, Z., Kaustova, J., Kroppenstedt, R. M., Lehn, N. & Naumann, L.(1998).Mycobacterium bohemicum sp. nov., a new slow-growing scotochromogenic mycobacterium. Int J Syst Bacteriol 48, 1349–1355.[CrossRef] [Google Scholar]
  13. Roth, A., Fisher, 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. [Google Scholar]
  14. Saitou, N. & Nei, M.(1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425. [Google Scholar]
  15. Sasser, M.(1990).Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101. Newark, DE: MIDI Inc.
  16. Takewaki, S., Okuzumi, K., Manabe, I., Tanimura, M., Miyamura, K., Nakahara, K., Yazaki, Y., Ohkubo, A. & Nagai, R.(1994). Nucleotide sequence comparison of the mycobacterial dnaJ gene and PCR-restriction fragment length polymorphism analysis for identification of mycobacterial species. Int J Syst Bacteriol 44, 159–166.[CrossRef] [Google Scholar]
  17. Tamura, K., Dudley, J., Nei, M. & Kumar, S.(2007).mega 4: molecular evolutionary genetics analysis (mega) software version 4.0. Mol Biol Evol 24, 1596–1599.[CrossRef] [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. [Google Scholar]
  19. Tortoli, E.(2003). Impact of genotypic studies on mycobacterial taxonomy: the new mycobacteria of the 1990s. Clin Microbiol Rev 16, 319–354.[CrossRef] [Google Scholar]
  20. Turenne, C. Y., Tschetter, L., Wolfe, J. & Kabani, A.(2001). Necessity of quality-controlled 16S rRNA gene sequence databases: identifying nontuberculous Mycobacterium species. J Clin Microbiol 39, 3637–3648.[CrossRef] [Google Scholar]
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vol. , part 6, pp. 1518 - 1523

Fatty acid compositions of three strains of sp. nov. determined by GLC.

Neighbour-joining phylogenetic trees based on (Fig. S1) and (Fig. S2) sequences.

[PDF file of Supplementary Table and Figures](617 KB)



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