J. Dormans, M. Burger, D. Aguilar, R. Hernandez-pando, K. Kremer et al., Correlation of virulence, lung pathology, bacterial load and delayed type hypersensitivity responses after infection with different Mycobacterium tuberculosis genotypes in a BALB/c mouse model, Clinical and Experimental Immunology, vol.53, issue.3, pp.460-468, 2004.
DOI : 10.1128/IAI.71.10.6004-6011.2003

L. Tsenova, E. Ellison, R. Harbacheuski, A. Moreira, N. Kurepina et al., Clinical Isolates in the Rabbit Model of Meningitis Is Dependent on Phenolic Glycolipid Produced by the Bacilli, The Journal of Infectious Diseases, vol.192, issue.1, pp.98-106, 2005.
DOI : 10.1086/430614

C. Ford, R. Shah, M. Maeda, S. Gagneux, M. Murray et al., Mycobacterium tuberculosis mutation rate estimates from different lineages predict substantial differences in the emergence of drug-resistant tuberculosis, Nature Genetics, vol.69, issue.7, pp.784-790, 2013.
DOI : 10.1126/science.1124410

J. Glynn, J. Whiteley, P. Bifani, K. Kremer, and D. Van-soolingen, : A Systematic Review, Emerging Infectious Diseases, vol.8, issue.8, pp.843-849, 2002.
DOI : 10.3201/eid0805.020002

M. Dymova, O. Liashenko, P. Poteiko, V. Krutko, E. Khrapov et al., Genetic variation of Mycobacterium tuberculosis circulating in Kharkiv Oblast, Ukraine, BMC Infectious Diseases, vol.9, issue.10, p.21439097, 2011.
DOI : 10.1128/JCM.39.2.636-641.2001

F. Drobniewski, Y. Balabanova, and V. Nikolayevsky, Drug-Resistant Tuberculosis, Clinical Virulence, and the Dominance of the Beijing Strain Family in Russia, JAMA, vol.293, issue.22, pp.2726-2731, 2005.
DOI : 10.1001/jama.293.22.2726

M. Pillay and A. Sturm, Evolution of the Extensively Drug-Resistant F15/LAM4/KZN Strain of Mycobacterium tuberculosis in KwaZulu-Natal, South Africa, Clinical Infectious Diseases, vol.45, issue.11, pp.1409-1423, 2007.
DOI : 10.1086/522987

D. Costa, E. Lazzarini, L. Perizzolo, P. Diaz, C. Spies et al., Mycobacterium tuberculosis of RDRio Genotype is the Predominant Cause of Tuberculosis and Associated with Multi-Drug Resistance in Porto Alegre City, South Brazil, J Clin Microbiol, vol.Available, 2013.

I. Mokrousov, A. Vyazovaya, T. Otten, V. Zhuravlev, E. Pavlova et al., Mycobacterium tuberculosis Population in Northwestern Russia: An Update from Russian-EU/Latvian Border Region, PLoS ONE, vol.8, issue.7, p.22844457, 2012.
DOI : 10.1371/journal.pone.0041318.t005

T. Iwamoto, L. Grandjean, K. Arikawa, N. Nakanishi, L. Caviedes et al., Genetic Diversity and Transmission Characteristics of Beijing Family Strains of Mycobacterium tuberculosis in Peru, PLoS ONE, vol.7, issue.11, p.23185395, 2012.
DOI : 10.1371/journal.pone.0049651.s005

V. Ritacco, B. López, P. Cafrune, L. Ferrazoli, P. Suffys et al., Mycobacterium tuberculosis strains of the Beijing genotype are rarely observed in tuberculosis patients in South America, Mem??rias do Instituto Oswaldo Cruz, vol.103, issue.5, pp.489-492, 2008.
DOI : 10.1590/S0074-02762008000500014

P. Suárez, C. Watt, E. Alarcón, J. Portocarrero, D. Zavala et al., The Dynamics of Tuberculosis in Response to 10 Years of Intensive Control Effort in Peru, The Journal of Infectious Diseases, vol.184, issue.4, pp.473-478, 2001.
DOI : 10.1086/322777

L. Caviedes, T. Lee, R. Gilman, P. Sheen, E. Spellman et al., Rapid, efficient detection and drug susceptibility testing of Mycobacterium tuberculosis in sputum by microscopic observation of broth cultures. The Tuberculosis Working Group in Peru, J Clin Microbiol, vol.38, pp.1203-1211, 2000.

A. Mendoza, E. Castillo, N. Gamarra, T. Huaman, M. Perea et al., Reliability of the MODS assay decentralisation process in three health regions in Peru, Int J Tuberc Lung Dis, vol.15, pp.217-239, 2011.

D. Moore, C. Evans, R. Gilman, L. Caviedes, J. Coronel et al., Microscopic-Observation Drug-Susceptibility Assay for the Diagnosis of TB, New England Journal of Medicine, vol.355, issue.15, pp.1539-1550, 2006.
DOI : 10.1056/NEJMoa055524

F. Ausubel, Short protocols in molecular biology, 2002.

J. Van-embden, M. Cave, J. Crawford, J. Dale, K. Eisenach et al., Strain identification of Mycobacterium tuberculosis by DNA fingerprinting: recommendations for a standardized methodology, J Clin Microbiol, vol.31, pp.406-415, 1993.

P. Supply, C. Allix, S. Lesjean, M. Cardoso-oelemann, S. Rusch-gerdes et al., Proposal for Standardization of Optimized Mycobacterial Interspersed Repetitive Unit-Variable-Number Tandem Repeat Typing of Mycobacterium tuberculosis, Journal of Clinical Microbiology, vol.44, issue.12, pp.4498-510, 2006.
DOI : 10.1128/JCM.01392-06

K. Brudey, J. Driscoll, L. Rigouts, W. Prodinger, A. Gori et al., Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpolDB4) for classification , population genetics and epidemiology, BMC Microbiology, vol.6, issue.1, pp.23-16519816, 2006.
DOI : 10.1186/1471-2180-6-23

S. Niemann, R. Diel, G. Khechinashvili, M. Gegia, N. Mdivani et al., Mycobacterium tuberculosis Beijing Lineage Favors the Spread of Multidrug-Resistant Tuberculosis in the Republic of Georgia, Journal of Clinical Microbiology, vol.48, issue.10, pp.3544-50, 2010.
DOI : 10.1128/JCM.00715-10

A. Hsu, C. Lin, Y. Lee, C. Chiang, L. Chen et al., Molecular epidemiology of multidrugresistant Mycobacterium tuberculosis in Eastern Taiwan, Int J Tuberc Lung Dis, vol.14, pp.924-930, 2010.

P. Sheen, D. Couvin, L. Grandjean, M. Zimic, M. Dominguez et al., Genetic Diversity of Mycobacterium tuberculosis in Peru and Exploration of Phylogenetic Associations with Drug Resistance, PLoS ONE, vol.17, issue.6, p.23826083, 2013.
DOI : 10.1371/journal.pone.0065873.s004

URL : https://hal.archives-ouvertes.fr/pasteur-00870729

C. Taype, J. Agapito, R. Accinelli, J. Espinoza, S. Godreuil et al., Genetic diversity, population structure and drug resistance of Mycobacterium tuberculosis in Peru, Infection, Genetics and Evolution, vol.12, issue.3, pp.577-585, 2012.
DOI : 10.1016/j.meegid.2012.02.002

M. Sebek, DNA fingerprinting and contact investigation, Int J Tuberc Lung Dis, vol.4, pp.45-53, 2000.

E. Vynnycky, N. Nagelkerke, M. Borgdorff, D. Van-soolingen, J. Van-embden et al., The effect of age and study duration on the relationship between " clustering " of DNA fingerprint patterns and the proportion of tuberculosis disease attributable to recent transmission, Epidemiol Infect, vol.126, pp.43-62, 2001.

T. Wirth, F. Hildebrand, C. Allix-béguec, F. Wölbeling, T. Kubica et al., Origin, Spread and Demography of the Mycobacterium tuberculosis Complex, PLoS Pathogens, vol.56, issue.9, p.18802459, 2008.
DOI : 10.1371/journal.ppat.1000160.s007

I. Comas, S. Homolka, S. Niemann, and S. Gagneux, Genotyping of Genetically Monomorphic Bacteria: DNA Sequencing in Mycobacterium tuberculosis Highlights the Limitations of Current Methodologies, PLoS ONE, vol.18, issue.11, 2009.
DOI : 10.1371/journal.pone.0007815.s006