1887

Abstract

Lineage 7 of the Mycobacterium tuberculosis complex has recently been identified among strains originating from Ethiopia. Using different DNA typing techniques, this study provides additional information on the genetic heterogeneity of five lineage 7 strains collected in the Amhara Region of Ethiopia. It also confirms the phylogenetic positioning of these strains between the ancient lineage 1 and TbD1-deleted, modern lineages 2, 3 and 4 of Mycobacterium tuberculosis. Four newly identified large sequence polymorphisms characteristic of the Amhara Region lineage 7 strains are described. While lineage 7 strains have been previously identified in the Woldiya area, we show that lineage 7 strains circulate in other parts of the Amhara Region and also among foreign-born individuals from Eritrea and Somalia in The Netherlands. For ease of documenting future identification of these strains in other geographical locations and recognizing the place of origin, we propose to assign lineage 7 strains the lineage name Aethiops vetus.

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2016-06-24
2021-12-08
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References

  1. Alonso-Rodríguez N., Martínez-Lirola M., Herránz M., Sanchez-Benitez M., Barroso P., Bouza E., García de Viedma D. INDAL-TB group 2008; Evaluation of the new advanced 15-loci MIRU-VNTR genotyping tool in Mycobacterium tuberculosis molecular epidemiology studies. BMC Microbiol 8: [View Article][PubMed]
    [Google Scholar]
  2. Barrick J. E., Yu D. S., Yoon S. H., Jeong H., Oh T. K., Schneider D., Lenski R. E., Kim J. F. 2009; Genome evolution and adaptation in a long-term experiment with Escherichia coli. Nature 461:1243–1247
    [Google Scholar]
  3. Bentley S. D., Comas I., Bryant J. M., Walker D., Smith N. H., Harris S. R., Thurston S., Gagneux S., Wood J. 2012; The genome of Mycobacterium africanum West African 2 reveals a lineage-specific locus and genome erosion common to the M. tuberculosis complex. PLoS Negl Trop Dis 6:e1552 [View Article][PubMed]
    [Google Scholar]
  4. Blouin Y., Cazajous G., Dehan C., Soler C., Vong R., Hassan M. O., Hauck Y., Boulais C., Andriamanantena D. et al. 2014; Progenitor “Mycobacterium canettii” clone responsible for lymph node tuberculosis epidemic, Djibouti. Emerg Infect Dis 20:21–28[PubMed]
    [Google Scholar]
  5. Blouin Y., Hauck Y., Soler C., Fabre M., Vong R., Dehan C., Cazajous G., Massoure P. L., Kraemer P. 2012; Significance of the identification in the Horn of Africa of an exceptionally deep branching Mycobacterium tuberculosis clade. PLoS One 7:e52841 [View Article][PubMed]
    [Google Scholar]
  6. Boritsch E. C., Frigui W., Cascioferro A., Malaga W., Etienne G., Laval F., Pawlik A., Le Chevalier F., Orgeur M. et al. 2016; pks5-recombination-mediated surface remodelling in Mycobacterium tuberculosis emergence. Nature Microbiology 1:15019 [View Article]
    [Google Scholar]
  7. Brosch R., Gordon S. V., Marmiesse M., Brodin P., Buchrieser C., Eiglmeier K., Garnier T., Gutierrez C., Hewinson G. et al. 2002; A new evolutionary scenario for the Mycobacterium tuberculosis complex. Proc Natl Acad Sci U S A 99:3684–3689 [View Article][PubMed]
    [Google Scholar]
  8. Brudey K., Driscoll J. R., Rigouts L., Prodinger W. M., Gori A., Al-Hajoj S. A., Allix C., Aristimuño L., Arora J. et al. 2006; Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpolDB4) for classification, population genetics and epidemiology. BMC Microbiol 6: [View Article][PubMed]
    [Google Scholar]
  9. Carver T., Berriman M., Tivey A., Patel C., Böhme U., Barrell B. G., Parkhill J., Rajandream M. A. 2008; Artemis and ACT: viewing, annotating and comparing sequences stored in a relational database. Bioinformatics 24:2672–2676 [View Article][PubMed]
    [Google Scholar]
  10. Christie J. D., Callihan D. R. 1995; The laboratory diagnosis of mycobacterial diseases. challenges and common sense. Clin Lab Med 15:279–306[PubMed]
    [Google Scholar]
  11. Comas I., Coscolla M., Luo T., Borrell S., Holt K. E., Kato-Maeda M., Parkhill J., Malla B., Berg S. 2013; Out-of-Africa migration and Neolithic coexpansion of Mycobacterium tuberculosis with modern humans. Nat Genet 45:1176–1182 [View Article][PubMed]
    [Google Scholar]
  12. Firdessa R., Berg S., Hailu E., Schelling E., Gumi B., Erenso G., Gadisa E., Kiros T., Habtamu M. et al. 2013; Mycobacterial lineages causing pulmonary and extrapulmonary tuberculosis, Ethiopia. Emerg Infect Dis 19:460–463 [View Article][PubMed]
    [Google Scholar]
  13. Gagneux S., DeRiemer K., Van T., Kato-Maeda M., de Jong B. C., Narayanan S., Nicol M., Niemann S., Kremer K. et al. 2006; Variable host-pathogen compatibility in Mycobacterium tuberculosis. Proc Natl Acad Sci U S A 103:2869–2873 [View Article][PubMed]
    [Google Scholar]
  14. Global Tuberculosis Report 2014; World Health Organization. ISBN 9789241564809
  15. Hernandez Pando R., Aguilar D., Cohen I., Guerrero M., Ribon W., Acosta P., Orozco H., Marquina B., Salinas C. et al. 2010; Specific bacterial genotypes of Mycobacterium tuberculosis cause extensive dissemination and brain infection in an experimental model. Tuberculosis (Edinb) 90:268–277 [View Article][PubMed]
    [Google Scholar]
  16. Kamerbeek J., Schouls L., Kolk A., van Agterveld M., van Soolingen D., Kuijper S., Bunschoten A., Molhuizen H., Shaw R. et al. 1997; Simultaneous detection and strain differentiation of Mycobacterium tuberculosis for diagnosis and epidemiology. J Clin Microbiol 35:907–914[PubMed]
    [Google Scholar]
  17. López-Granados E., Cambronero R., Ferreira A., Fontán G., García-Rodríguez M. C. 2003; Three novel mutations reflect the variety of defects causing phenotypically diverse X-linked hyper-IgM syndrome. Clin Exp Immunol 133:123–131 [View Article][PubMed]
    [Google Scholar]
  18. Manca C., Tsenova L., Barry C. E., Bergtold A., Freeman S., Haslett P. A., Musser J. M., Freedman V. H., Kaplan G. 1999; Mycobacterium tuberculosis CDC1551 induces a more vigorous host response in vivo and in vitro, but is not more virulent than other clinical isolates. J Immunol 162:6740–6746[PubMed]
    [Google Scholar]
  19. Mariam S. H. 2009; Interaction between lactic acid bacteria and Mycobacterium bovis in Ethiopian fermented milk: insight into the fate of M. bovis. Appl Environ Microbiol 75:1790–1792 [View Article][PubMed]
    [Google Scholar]
  20. Parsons L. M., Brosch R., Cole S. T., Somoskövi A., Loder A., Bretzel G., Van Soolingen D., Hale Y. M., Salfinger M. 2002; Rapid and simple approach for identification of Mycobacterium tuberculosis complex isolates by PCR-based genomic deletion analysis. J Clin Microbiol 40:2339–2345 [View Article][PubMed]
    [Google Scholar]
  21. Rao S. 2009; Sputum smear microscopy in DOTS: Are three samples necessary? An analysis and its implications in tuberculosis control. Lung India : Official Organ of Indian Chest Society 26:3–4 [View Article][PubMed]
    [Google Scholar]
  22. Siddiqi S. H., Rüsch-Gerdes S. 2006 MGIT procedure Manual Geneva,Switzerland: Foundation for Innovative New Diagnostics;
    [Google Scholar]
  23. Sreevatsan S., Pan X., Stockbauer K. E., Connell N. D., Kreiswirth B. N., Whittam T. S., Musser J. M. 1997; Restricted structural gene polymorphism in the Mycobacterium tuberculosis complex indicates evolutionarily recent global dissemination. Proc Natl Acad Sci U S A 94:9869–9874 [View Article][PubMed]
    [Google Scholar]
  24. Supply P., Allix C., Lesjean S., Cardoso-Oelemann M., Rüsch-Gerdes S., Willery E., Savine E., de Haas P., van Deutekom H. et al. 2006; Proposal for standardization of optimized mycobacterial interspersed repetitive unit-variable-number tandem repeat typing of Mycobacterium tuberculosis. J Clin Microbiol 44:4498–4510 [View Article][PubMed]
    [Google Scholar]
  25. Supply P., Marceau M., Mangenot S., Roche D., Rouanet C., Khanna V., Majlessi L., Criscuolo A., Tap J. et al. 2013; Genomic analysis of smooth tubercle bacilli provides insights into ancestry and pathoadaptation of Mycobacterium tuberculosis. Nat Genet 45:172–179 [View Article][PubMed]
    [Google Scholar]
  26. van Klingeren B., Dessens-Kroon M., van der Laan T., Kremer K., van Soolingen D. 2007; Drug susceptibility testing of Mycobacterium tuberculosis complex by use of a high-throughput, reproducible, absolute concentration method. J Clin Microbiol 45:2662–2668 [View Article][PubMed]
    [Google Scholar]
  27. Warren R. M., Gey van Pittius N. C., Barnard M., Hesseling A., Engelke E., de Kock M., Gutierrez M. C., Chege G. K., Victor T. C. et al. 2006; Differentiation of Mycobacterium tuberculosis complex by PCR amplification of genomic regions of difference. Int J Tuberc Lung Dis 10:818–822[PubMed]
    [Google Scholar]
  28. Yimer S. A., Hailu E., Derese Y., Bjune G. A., Holm-Hansen C. 2013; Spoligotyping of Mycobacterium tuberculosis isolates among pulmonary tuberculosis patients in Amhara Region, Ethiopia. APMIS 121:878–885 [View Article][PubMed]
    [Google Scholar]
  29. Yimer S. A., Norheim G., Namouchi A., Zegeye E. D., Kinander W., Tønjum T., Bekele S., Mannsåker T., Bjune G. et al. 2015; Mycobacterium tuberculosis Lineage 7 Strains are associated with prolonged patient delay in seeking treatment for pulmonary tuberculosis in Amhara Region, Ethiopia. J Clin Microbiology 53:1301–1309
    [Google Scholar]
  30. Zwadyk P., Down J. A., Myers N., Dey M. S. 1994; Rendering of mycobacteria safe for molecular diagnostic studies and development of a lysis method for strand displacement amplification and PCR. J Clin Microbiol 32:2140–2146[PubMed]
    [Google Scholar]
  31. Nebenzahl-Guimaraes, H. European Nucleotide Archive, study PRJEB8432 (ERP009510) 2015
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