1887

Abstract

Several -like organisms related to the complex have been isolated from clinical samples. In the clinical microbiology laboratory, partial 16S rRNA gene sequencing (approximately the first 500 bp) rather than full 16S rRNA gene sequencing is often used to identify species. Partial 16S rRNA gene sequence analysis revealed 100 % similarity between 65 clinical isolates and sp. MCRO 6 (GenBank accession no. X93032). Even after sequencing the nearly full-length 16S rRNA gene, closest similarity was only 99.6 % to ATCC 19530. Sequencing of the nearly full-length 16S rRNA gene, the 16S–23S internal transcribed spacer region and the gene did not reveal genotypic identity with the type strains of , or . Although sequence analysis suggested that these clinical isolates represented a novel species, mycolic acid analysis by HPLC failed to distinguish them from . Therefore, phenotypic analysis including growth characterization, antibiotic susceptibility testing and biochemical testing was performed. These strains from clinical samples should be recognized as representing a novel species of the genus , for which the name sp. nov. is proposed. The type strain is AR30097 (=ATCC BAA-1242=DSM 44942).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.64194-0
2006-06-01
2020-01-29
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/56/6/1413.html?itemId=/content/journal/ijsem/10.1099/ijs.0.64194-0&mimeType=html&fmt=ahah

References

  1. Brown, B. A., Springer, B., Steingrube, V. A. & 10 other authors ( 1999; ). Mycobacterium wolinskyi sp. nov. and Mycobacterium goodii sp. nov., two new rapidly growing species related to Mycobacterium smegmatis and associated with human wound infections: a cooperative study from the International Working Group on mycobacterial taxonomy. Int J Syst Bacteriol 49, 1493–1511.[CrossRef]
    [Google Scholar]
  2. Cloud, J. L., Neal, H., Rosenberry, R., Turenne, C. Y., Jama, M., Hillyard, D. R. & Carroll, K. C. ( 2002; ). Identification of Mycobacterium spp. by using a commercial 16S ribosomal DNA sequencing kit and additional sequencing libraries. J Clin Microbiol 40, 400–406.[CrossRef]
    [Google Scholar]
  3. Ji, Y., Colston, M. & Cox, R. ( 1994; ). The ribosomal RNA (rrn) operons of fast-growing mycobacteria: primary and secondary structures and their relation to rrn operons of pathogenic slow-growers. Microbiology 140, 2829–2840.[CrossRef]
    [Google Scholar]
  4. Kimura, M. ( 1980; ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16, 111–120.[CrossRef]
    [Google Scholar]
  5. Lee, C. K., Gi, H. M., Cho, Y. & 8 other authors ( 2004; ). The genomic heterogeneity among Mycobacterium terrae complex displayed by sequencing of 16S rRNA and hsp65 genes. Microbiol Immunol 48, 83–90.[CrossRef]
    [Google Scholar]
  6. Menendez, M. C., Garcia, M. J., Navarro, M. C., Gonzalez-y-Merchand, J. A., Rivera-Gutierrez, S., Garcia-Sanchez, L. & Cox, R. A. ( 2002; ). Characterization of an rRNA operon (rrnB) of Mycobacterium fortuitum and other mycobacterial species: implications for the classification of mycobacteria. J Bacteriol 184, 1078–1088.[CrossRef]
    [Google Scholar]
  7. Mohamed, A. M., Kuyper, D. J., Iwen, P. C., Ali, H. H., Bastola, D. R. & Hinrichs, S. H. ( 2005; ). Computational approach involving use of the internal transcribed spacer 1 region for identification of Mycobacterium species. J Clin Microbiol 43, 3811–3817.[CrossRef]
    [Google Scholar]
  8. Patel, J. B., Leonard, D. G. B., Pan, X., Musser, J. M., Berman, R. E. & Nachamkin, I. ( 2000; ). Sequence-based identification of Mycobacterium species using the MicroSeq 500 16S rDNA bacterial identification system. J Clin Microbiol 38, 246–251.
    [Google Scholar]
  9. Pauls, R. J., Turenne, C. Y., Wolfe, N. & Kabani, A. ( 2003; ). A high proportion of novel mycobacteria species identified by 16S rDNA analysis among slowly growing accuprobe-negative strains in a clinical setting. Am J Clin Pathol 120, 560–566.[CrossRef]
    [Google Scholar]
  10. Ringuet, H., Akoua-Koffi, C., Honore, S., Varnerot, A., Vincent, V., Berche, P., Gaillard, J. L. & Pierre-Audigier, C. ( 1999; ). hsp65 sequencing for identification of rapidly growing mycobacteria. J Clin Microbiol 37, 852–857.
    [Google Scholar]
  11. 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.
    [Google Scholar]
  12. Roth, A., Reischl, U., Streubel, A., Naumann, L., Kroppenstedt, R. M., Habicht, M., Fischer, M. & Mauch, H. ( 2000; ). Novel diagnostic algorithm for identification of mycobacteria using genus-specific amplification of the 16S–23S rRNA gene spacer and restriction endonucleases. J Clin Microbiol 38, 1094–1104.
    [Google Scholar]
  13. Shinners, D. & Yeager, H., Jr ( 1999; ). Nontuberculous mycobacterial infection: clinical syndromes and diagnosis: overview. In Tuberculosis and Non-Tuberculosis Mycobacterial Infections, 4th edn, pp. 341–350. Edited by D. Schlossberg. Philadelphia: W. B. Saunders.
  14. Thompson, J. D., Higgins, D. G. & Gibson, T. J. ( 1994; ). clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22, 4673–4680.[CrossRef]
    [Google Scholar]
  15. Torkko, P., Suutari, M., Suomalainen, S., Paulin, L., Larsson, L. & Katila, M.-L. ( 1998; ). Separation among species of Mycobacterium terrae complex by lipid analyses: comparison with biochemical tests and 16S rRNA sequencing. J Clin Microbiol 36, 499–505.
    [Google Scholar]
  16. 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]
  17. 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]
  18. Turenne, C. Y., Cook, V. J., Burdz, T. V., Pauls, R. J., Thibert, L., Wolfe, J. N. & Kabani, A. ( 2004; ). Mycobacterium parascrofulaceum sp. nov., novel slowly growing, scotochromogenic clinical isolates related to Mycobacterium simiae. Int J Syst Evol Microbiol 54, 1543–1551.[CrossRef]
    [Google Scholar]
  19. Vincent, V., Brown-Elliott, B. A., Jost, K. C., Jr & Wallace, R. J., Jr ( 2003; ). Mycobacterium: phenotypic and genotypic identification. In Manual of Clinical Microbiology, 8th edn, vol. 1, pp. 563–567. Edited by P. R. Murray, E. J. Baron, J. H. Jorgensen, M. A. Pfaller & R. H. Yolken. Washington, DC: American Society for Microbiology.
  20. Wallace, R. J., Jr, Brown-Elliott, B. A., Hall, L. & 9 other authors ( 2002; ). Clinical and laboratory features of Mycobacterium mageritense. J Clin Microbiol 40, 2930–2935.[CrossRef]
    [Google Scholar]
  21. Wayne, L. G. & Kubica, G. P. ( 1986; ). Genus Mycobacterium Lehmann and Neumann 1896, 363AL. In Bergey's Manual of Systematic Bacteriology, vol. 2, pp. 1436–1457. Edited by P. H. A. Sneath, N. S. Mair, M. E. Sharpe & J. G. Holt. Baltimore: Williams & Wilkins.
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.64194-0
Loading
/content/journal/ijsem/10.1099/ijs.0.64194-0
Loading

Data & Media loading...

Supplements

Primers used for sequence-based studies. [PDF](24 KB)

PDF

[PDF file of Supplementary Figs S1-S3](31 KB)

PDF

Most cited articles

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