1887

Abstract

Fourteen mycobacterial strains isolated from pulmonary samples of independent patients in the state of Pará (Brazil), and three strains isolated in Italy, were characterized using a polyphasic approach. Thorough genetic investigation, including whole-genome sequencing, demonstrated that the strains belong to the complex, being most closely related to . For 14 of the strains, evidence emerged supporting their inclusion in a previously unreported species of the genus , for which the name sp. nov. is proposed (type strain, IEC26 = DSM 46749 = CCUG 66121). The novel species is characterized by slow growth, unpigmented or pale yellow scotochromogenic colonies, and a HPLC mycolic acid profile different from other known mycobacteria. In different genetic regions, high sequence microheterogeneity was detected.

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2015-02-01
2019-12-13
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References

  1. 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][PubMed]
    [Google Scholar]
  2. Bankevich A., Nurk S., Antipov D., Gurevich A. A., Dvorkin M., Kulikov A. S., Lesin V. M., Nikolenko S. I., Pham S.. & other authors ( 2012;). SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. . J Comput Biol 19:, 455–477. [CrossRef][PubMed]
    [Google Scholar]
  3. CLSI (2011). Susceptibility Testing of Mycobacteria, Nocardiae and Other Aerobic Actinomycetes; Approved Standard, 2nd edn, M24-A2. Wayne, PA: Clinical and Laboratory Standards Institute.
  4. da Costa A. R., Lopes M. L., Furlaneto I. P., de Sousa M. S., Lima K. V.. ( 2010;). Molecular identification of nontuberculous mycobacteria isolates in a Brazilian mycobacteria reference laboratory. . Diagn Microbiol Infect Dis 68:, 390–394. [CrossRef][PubMed]
    [Google Scholar]
  5. Darling A. E., Mau B., Perna N. T.. ( 2010;). progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement. . PLoS ONE 5:, e11147. [CrossRef][PubMed]
    [Google Scholar]
  6. Fanti F., Tortoli E., Hall L., Roberts G. D., Kroppenstedt R. M., Dodi I., Conti S., Polonelli L., Chezzi C.. ( 2004;). Mycobacterium parmense sp. nov.. Int J Syst Evol Microbiol 54:, 1123–1127. [CrossRef][PubMed]
    [Google Scholar]
  7. Goris J., Konstantinidis K. T., Klappenbach J. A., Coenye T., Vandamme P., Tiedje J. M.. ( 2007;). DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. . Int J Syst Evol Microbiol 57:, 81–91. [CrossRef][PubMed]
    [Google Scholar]
  8. Kent P. T., Kubica G. P.. ( 1985;). Public Health Mycobacteriology. A guide for the Level III Laboratory. Atlanta:: U.S. Department of Health and Human Services;.
    [Google Scholar]
  9. Kirschner P., Springer B., Vogel U., Meier A., Wrede A., Kiekenbeck M., Bange F. C., Böttger E. C.. ( 1993;). Genotypic identification of mycobacteria by nucleic acid sequence determination: report of a 2-year experience in a clinical laboratory. . J Clin Microbiol 31:, 2882–2889.[PubMed]
    [Google Scholar]
  10. 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][PubMed]
    [Google Scholar]
  11. Rhodes M. W., Kator H., McNabb A., Deshayes C., Reyrat J. M., Brown-Elliott B. A., Wallace R. Jr, Trott K. A., Parker J. M.. & other authors ( 2005;). Mycobacterium pseudoshottsii sp. nov., a slowly growing chromogenic species isolated from Chesapeake Bay striped bass (Morone saxatilis). . Int J Syst Evol Microbiol 55:, 1139–1147. [CrossRef][PubMed]
    [Google Scholar]
  12. 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]
  13. Saitou N., Nei M.. ( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4:, 406–425.[PubMed]
    [Google Scholar]
  14. Springer B., Kirschner P., Rost-Meyer G., Schröder K. H., Kroppenstedt R. M., Böttger E. C.. ( 1993;). Mycobacterium interjectum, a new species isolated from a patient with chronic lymphadenitis. . J Clin Microbiol 31:, 3083–3089.[PubMed]
    [Google Scholar]
  15. Sullivan M. J., Petty N. K., Beatson S. A.. ( 2011;). Easyfig: a genome comparison visualizer. . Bioinformatics 27:, 1009–1010. [CrossRef][PubMed]
    [Google Scholar]
  16. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S.. ( 2013;). mega6: molecular evolutionary genetics analysis version 6.0. . Mol Biol Evol 30:, 2725–2729. [CrossRef][PubMed]
    [Google Scholar]
  17. 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][PubMed]
    [Google Scholar]
  18. Torkko P., Suomalainen S., Iiavanainen E., Tortoli E., Suutari M., Seppänen J., Paulin L., Katila M. L.. ( 2002;). Mycobacterium palustre sp. nov., a potentially pathogenic, slowly growing mycobacterium isolated from clinical and veterinary specimens, and from Finnish stream waters. . Int J Syst Evol Microbiol 52:, 1519–1525. [CrossRef][PubMed]
    [Google Scholar]
  19. Tortoli E., Bartoloni A., Burrini C., Colombrita D., Mantella A., Pinsi G., Simonetti M. T., Swierczynski G., Böttger E. C.. ( 1996;). Characterization of an isolate of the newly described species Mycobacterium interjectum. . Zentralbl Bakteriol 283:, 286–294. [CrossRef][PubMed]
    [Google Scholar]
  20. Tortoli E., Böttger E. C., Fabio A., Falsen E., Gitti Z., Grottola A., Klenk H. P., Mannino R., Mariottini A.. & other authors ( 2011;). Mycobacterium europaeum sp. nov., a scotochromogenic species related to the Mycobacterium simiae complex. . Int J Syst Evol Microbiol 61:, 1606–1611. [CrossRef][PubMed]
    [Google Scholar]
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