Issue

Vol. 65 No. 7: Issue 7

The undersigned hereby assign all rights, included but not limited to copyright, for this manuscript to CMB Association upon its submission for consideration to publication on Cellular and Molecular Biology. The rights assigned include, but are not limited to, the sole and exclusive rights to license, sell, subsequently assign, derive, distribute, display and reproduce this manuscript, in whole or in part, in any format, electronic or otherwise, including those in existence at the time this agreement was signed. The authors hereby warrant that they have not granted or assigned, and shall not grant or assign, the aforementioned rights to any other person, firm, organization, or other entity. All rights are automatically restored to authors if this manuscript is not accepted for publication.

MIRU-VNTR 15 loci capability in diagnosis of Beijing M. Tuberculosis strains in comparison with Real Time PCR

https://doi.org/10.14715/cmb/2019.65.7.3
Maya BabaiiKochaksareii
Department of Microbiology, Ayatollah Amoli Branch, Islamic Azad University, Amol, Iran
Hami Kaboosi
Department of Microbiology, Ayatollah Amoli Branch, Islamic Azad University, Amol, Iran
Ezzat Allah Ghaemi
Infectious Diseases Research Center, Golestan University of Medical Sciences, Gorgan, Iran

Corresponding Author(s) : Ezzat Allah Ghaemi

eghaemi@yahoo.com

Cellular and Molecular Biology, Vol. 65 No. 7: Issue 7

Abstract

Beijing strain has great importance among Mycobacterium tuberculosis (MTB) genotypes due to their drug resistance and pathogenicity. Determination of MTB genotypes and comparison of MIRU-VNTR 15 loci and real-time PCR methods for Beijing family identification was the main objective in this study. This study was conducted on 92 confirmed MTB isolates, 31 and 61 of which previously were determined by real- time PCR as Beijing and non-Beijing, respectively. Allelic diversity, clustering rate, phylogenetic tree, clonal complexes and molecular genotypes of isolates were determined by MIRU-VNTR 15 loci on its online software. In addition MIRU-VNTR 15 loci were performed for 16 non-tuberculosis isolates. Concordance between MIRU-VNTR 15 loci and real Time PCR in determination of Beijing genotype was 95.6(89.2-98.8). 74 different pattern of MIRU-VNTR were detected in 92 MTB isolates. 69 patterns were unique and 5 clusters were determined. Largest clusters contain 11 and 6 members. The clustering rate was 19.56%. Among 15 loci, Mtub04 and MIRU10 have the highest and MIRU04 had the lowest discriminatory power. In non-Beijing isolates, New1 and Delhi/CAS with 25% and 16.3% were the most prevalent MTB genotypes. None of the non-Tuberculosis isolates had the complete MIRU-VNTR 15 loci pattern. The results of this study showed that MIRU-VNTR 15 loci, in addition to being able to differentiate MTB genotypes, can distinguish non-tuberculosis species from MTB strains, but for the exact differentiation of Beijing MTB genotypes, it may be necessary to increase the patterns known in MIRU-VNTR data base.

Keywords

Mycobacterium tuberculosis Beijing genotype MIRU-VNTR Real time PCR.
BabaiiKochaksareii, M., Kaboosi, H., & Ghaemi, E. A. (2019). MIRU-VNTR 15 loci capability in diagnosis of Beijing M. Tuberculosis strains in comparison with Real Time PCR. Cellular and Molecular Biology, 65(7), 10–14. https://doi.org/10.14715/cmb/2019.65.7.3
Download Citation
Endnote/Zotero/Mendeley (RIS)
BibTeX
References
  1. World Health Organization. GLOBAL TUBERCULOSIS REPORT 2017. (http://www.who.int/tb/publications/global_report/gtbr2017_main_text.pdf)
  2. Kato-Maeda M, Shanley CA, Ackart D, Jarlsberg LG, Shang S, Obregon-Henao A, et al. Beijing sublineages of Mycobacterium tuberculosis differ in pathogenicity in the guinea pig. Clin Vaccine Immunol. 2012;19: 1227–37.
  3. Merker M, Blin C, Mona S et al. Evolutionary history and global spread of the Mycobacterium tuberculosis Beijing lineage. Nat Genet. 2015; 47: 242–249.
  4. Lillebaek T, Andersen AB, Dirksen A, Glynn JR, Kremer K. Mycobacterium tuberculosis Beijing genotype. Emerg Infect Dis. 2003; 9(12):1553–57.
  5. Stoffels K, Allix-Beguec C, Groenen G et al. From multidrug- to extensively drug-resistant tuberculosis: upward trends as seen from a 15-year nationwide study. PLoS ONE. 2013; 8: e63128.
  6. Mohajeri P, Moradi S,Atashi S, and Farahani A. Mycobacterium tuberculosis Beijing Genotype in Western Iran: Distribution and Drug Resistance. J Clin Diagn Res. 2016; 10(10): 5–7.
  7. Liu H, Zhang Y, Liu Z, Liu J, Hauck Y, Liu J, Dong H, Liu J, ETAL. Associations between Mycobacterium tuberculosis Beijing genotype and drug resistance to four first-line drugs: a survey in China. Frontiers of Medicine. 2018;12(1):92–97
  8. Coscolla M and Gagneux S. Consequences of genomic diversity in Mycobacterium tuberculosis. Semin. Immunol. 2014. 26:441–444
  9. Zhou Y, van den Hof S, Wang S, Pang Y, Zhao B, Xia H, et al. Association between genotype and drug resistance profiles of Mycobacterium tuberculosis strains circulating in China in a national drug resistance survey. PLoS ONE. 2017; 12(3): e0174197.
  10. van Soolingen, D. Qian L, de Haas PE, Douglas JT, Traore H, Portaels F. et al. Predominance of a single genotype of Mycobacterium tuberculosis in countries of east Asia. J Clin Microbiol. 1995; 33, 3234–8.
  11. Hoffner S, Sahebi L, Ansarin K, Sabour S and Mohajer P. Mycobacterium tuberculosis of the Beijing Genotype in Iran and the World Health Organization Eastern Mediterranean Region: A Meta-Analysis. MICROBIAL DRUG RESISTANCE. 2018;24(6): 693-8
  12. Velayati AA, Farnia P, Mirsaedi M, et al. The most prevalent Mycobacterium tuberculosis superfamilies among Iranian and afghan TB cases. Scand J Infect Dis 2006; 38: 463-8.
  13. Torkaman MR, Nasiri MJ, Farnia P, Shahhosseiny MH, Mozafari M, Velayati AA. Estimation of Recent Transmission of Mycobacterium Tuberculosis Strains among Iranian and Afghan Immigrants:A Cluster-Based Study. J Clin Diagn Res. 2014; 8(9):DC05–8.
  14. Mansoori N, Yaseri M, Vaziri F, Douraghi M. Genetic diversity of Mycobacterium tuberculosis complex isolates circulating in an area with high tuberculosis incidence: Using 24-locus MIRU-VNTR method. Tuberculosis. 2018; 118:89-97
  15. Erie H, Kaboosi H, Javid N, Shirzad-Aski H, Taziki M, Babaee Kuchaksaraee M and Ghaemi EA. The high prevalence of Mycobacterium tuberculosis Beijing strain at an early age and extra-pulmonary tuberculosis cases. Iranoan Journal of Microbiology. 2017; 9(6):312-17
  16. Hillemann D, Warren R, Kubica T, Rusch-Gerdes S, Niemann S. Rapid Detection of Mycobacterium tuberculosis Beijing genotype strains by real-time PCR. J Clin Microbiol. 2006; 44: 302-306
  17. Supply P, Allix C, Lesjean S, Cardoso-Oelemann M, Rusch-Gerdes S, Willery E, et al. Proposal for standardization of optimized mycobacterial interspersed repetitive unit-variable-number tandem repeat typing of Mycobacterium tuberculosis. J Clin Microbiol. 2006; 44:4498-4510.
  18. Hunter PR, Gaston MA. Numerical index of the discriminatory ability of typing systems: an application of Simpson's index of diversity. Journal of Clinical Microbiology. 1988; 26: 2465-2466
  19. Riyahi Zaniani F, Moghim S, Mirhendi H, Ghasemian Safaei H, Fazeli H, Salehi M, et al. Genetic lineages of mycobacterium tuberculosis isolates in Isfahan, Iran. Curr Microbiol. 2017;74(1):14
  20. Feyisa SG, Haeili M, Zahednamazi F, Mosavari N, Taheri MM, Hamzehloo G, et al. Molecular characterization of Mycobacterium tuberculosis isolates from Tehran, Iran by restriction fragment length polymorphism analysis and spoligotyping. Revista da Sociedade Brasileira de Medicina Tropical. 2016 Apr;49(2):204-10.
  21. Baghbanian M, Zandi H, Zamani S, Javadpour S, Hamzehloo GR, Feizabadi MM. MIRU-VNTR analysis of Mycobacterium tuberculosis from Tehran, Sistan-Baluchestan, Kermanshah and Hormozgan during 2014 and 201. Cell Mol Biol (Noisy-le-grand). 2017 Dec 30; 63(12):14-21.
  22. Azimi T, Nasiri M ,.Zamani S, Hashemi A, Goudarzi H, ImaniFooladi AA, Feizabadi MM and Fallah F. High genetic diversity among Mycobacterium tuberculosis strains in Tehran, Iran. Journal of Clinical Tuberculosis and Other Mycobacterial Diseases. 2018; 11: 1-6
  23. Pourostadi M, Rashedi J, Poor BM, Kafil HS, Shirazi S, Asgharzadeh M. Molecular Diversity of Mycobacterium tuberculosis Strains in Northwestern Iran. Jundishapur journal of microbiology. 2016 Sep;9(9).
  24. Zamani S, Aflaki M, Fooladi AA, Darban-Sarokhalil D, Bameri Z, Khazaee S, et al. MIRU-VNTR analysis of the Mycobacterium tuberculosis isolates from three provinces of Iran. Scandinavian journal of infectious diseases. 2013 Feb 1;45(2):124-30.
  25. Ravansalar H, Tadayon K, Mosavari N, Derakhshan M, Ghazvini K.Genetic diversity of Mycobacterium tuberculosis complex isolated from patients in the Northeast of Iran by MIRU-VNTR and spoligotyping. Jundishapur J Microbiol. 2017;10 (4): e39568
  26. Mokrousov I. Revisiting the Hunter Gaston discriminatory index: Note of caution and courses of change. Tuberculosis. 2016, 104,20-23
  27. Tanveer M, Hasan Z, Siddiqui AR, Ali A, Kanji A, Ghebremicheal S and Hasan R. Genotyping and drug resistance patterns of M. tuberculosis strains in Pakistan. BMC Infectious Diseases.2008; 8:171
  28. Haeili M, Darban-Sarokhalil D, Imani Fooladi AA, Javadpour S, Hashemi A, Siavoshi F& Feizabad MM. et al.Spoligotyping and drug resistance patterns of Mycobacterium tuberculosis isolates from five provinces of Iran. MicrobiologyOpen 2013; 2(6): 988-996.
Read More
Author biographies is not available.
Crossref
Scopus
Google Scholar
Europe PMC
Download this PDF file
PDF
Statistic
Read Counter : 764 Download : 440