E. Alix, S. Godreuil, and A. B. Blanc-potard, Identification of a Haarlem Genotype-Specific Single Nucleotide Polymorphism in the mgtC Virulence Gene of Mycobacterium tuberculosis, Journal of Clinical Microbiology, vol.44, issue.6, pp.2093-2098, 2006.
DOI : 10.1128/JCM.00278-06

N. V. Bhanu, D. Van-soolingen, J. D. Van-embden, L. Dar, R. M. Pandey et al., Predominace of a novel Mycobacterium tuberculosis genotype in the Delhi region of India, Tuberculosis, vol.82, issue.2-3, pp.105-112, 2002.
DOI : 10.1054/tube.2002.0332

P. J. Bifani, B. Mathema, N. E. Kurepina, and B. N. Kreiswirth, Global dissemination of the Mycobacterium tuberculosis W-Beijing family strains, Trends in Microbiology, vol.10, issue.1, pp.45-52, 2002.
DOI : 10.1016/S0966-842X(01)02277-6

S. Brisse, P. Supply, R. Brosch, V. Vincent, and M. C. Gutierrez, ???A Re-Evaluation of M. prototuberculosis???: Continuing the Debate, PLoS Pathogens, vol.37, issue.9, p.95, 2006.
DOI : 0020-7713(1987)037[0463:ICOSBR]2.0.CO;2

R. Brosch, S. V. Gordon, M. Marmiesse, P. Brodin, C. Buchrieser et al., A new evolutionary scenario for the Mycobacterium tuberculosis complex, Proc. Natl. Acad. Sci. USA 99, pp.3684-3689, 2002.

D. Skuce, E. M. Van-soolingen, P. N. Streicher, E. Suffys, T. Tortoli et al., Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpolDB4) for classification, population genetics and epidemiology, BMC Microbiol, vol.6, p.23, 2006.

V. Chihota, L. Apers, S. Mungofa, W. Kasongo, I. M. Nyoni et al., Predominance of a single genotype of Mycobacterium tuberculosis in regions of Southern Africa, Int. J. Tuberc. Lung Dis, vol.11, pp.311-318, 2007.

E. L. Corbett, C. J. Watt, N. Walker, D. Maher, B. G. Williams et al., The Growing Burden of Tuberculosis, Archives of Internal Medicine, vol.163, issue.9, pp.1009-1021, 2003.
DOI : 10.1001/archinte.163.9.1009

J. W. Dale, H. Al-ghusein, S. Al-hashmi, P. Butcher, A. L. Dickens et al., Evolutionary Relationships among Strains of Mycobacterium tuberculosis with Few Copies of IS6110, Journal of Bacteriology, vol.185, issue.8, pp.2555-2562, 2003.
DOI : 10.1128/JB.185.8.2555-2562.2003

F. Drobniewski, Y. Balabanova, M. Ruddy, L. Weldon, K. Jeltkova et al., Rifampin- and Multidrug-Resistant Tuberculosis in Russian Civilians and Prison Inmates: Dominance of the Beijing Strain Family, Emerging Infectious Diseases, vol.8, issue.11, pp.1320-1326, 2002.
DOI : 10.3201/eid0811.020507

I. Filliol, J. R. Driscoll, D. Van-soolingen, B. N. Kreiswirth, K. Kremer et al., Snapshot of Moving and Expanding Clones of Mycobacterium tuberculosis and Their Global Distribution Assessed by Spoligotyping in an International Study, Journal of Clinical Microbiology, vol.41, issue.5, pp.1963-1970, 2003.
DOI : 10.1128/JCM.41.5.1963-1970.2003

I. Filliol, A. S. Motiwala, M. Cavatore, W. Qi, M. H. Hazbon et al., Global Phylogeny of Mycobacterium tuberculosis Based on Single Nucleotide Polymorphism (SNP) Analysis: Insights into Tuberculosis Evolution, Phylogenetic Accuracy of Other DNA Fingerprinting Systems, and Recommendations for a Minimal Standard SNP Set, Journal of Bacteriology, vol.188, issue.2, pp.759-772, 2006.
DOI : 10.1128/JB.188.2.759-772.2006

L. Flores, T. Van, S. Narayanan, K. Deriemer, M. Kato-maeda et al., Large Sequence Polymorphisms Classify Mycobacterium tuberculosis Strains with Ancestral Spoligotyping Patterns, Journal of Clinical Microbiology, vol.45, issue.10, pp.3393-3395, 2007.
DOI : 10.1128/JCM.00828-07

URL : http://jcm.asm.org/content/45/10/3393.full.pdf

S. Gagneux, K. Deriemer, T. Van, M. Kato-maeda, B. C. De-jong et al., Variable host-pathogen compatibility in Mycobacterium tuberculosis, Proc. Natl. Acad. Sci. USA, pp.2869-2873, 2006.
DOI : 10.1128/JCM.41.6.2547-2553.2003

URL : http://www.pnas.org/content/103/8/2869.full.pdf

K. S. Goh, N. Rastogi, M. Berchel, R. C. Huard, and C. Sola, Molecular Evolutionary History of Tubercle Bacilli Assessed by Study of the Polymorphic Nucleotide within the Nitrate Reductase (narGHJI) Operon Promoter, Journal of Clinical Microbiology, vol.43, issue.8, pp.4010-4014, 2005.
DOI : 10.1128/JCM.43.8.4010-4014.2005

M. M. Gutacker, H. Mathema, E. Soini, B. N. Shashkina, E. A. Kreiswirth et al., Strains from 4 Geographic Sites, The Journal of Infectious Diseases, vol.193, issue.1, pp.121-128, 2006.
DOI : 10.1086/498574

A. E. Hirsh, A. G. Tsolaki, K. Deriemer, M. W. Feldman, and P. M. Small, Stable association between strains of Mycobacterium tuberculosis and their human host populations, Proc. Natl. Acad. Sci. USA, pp.4871-4876, 2004.
DOI : 10.1164/ajrccm.158.6.9804029

R. C. Huard, L. C. De-oliveira-lazzarini, W. R. Butler, D. Van-soolingen, and J. L. Ho, PCR-Based Method To Differentiate the Subspecies of the Mycobacterium tuberculosis Complex on the Basis of Genomic Deletions, Journal of Clinical Microbiology, vol.41, issue.4, pp.1637-1650, 2003.
DOI : 10.1128/JCM.41.4.1637-1650.2003

R. C. Huard, M. Fabre, P. De-haas, L. C. Lazzarini, D. Van-soolingen et al., Novel Genetic Polymorphisms That Further Delineate the Phylogeny of the Mycobacterium tuberculosis Complex, Journal of Bacteriology, vol.188, issue.12, pp.4271-4287, 2006.
DOI : 10.1128/JB.01783-05

A. Ignatova, S. Dubiley, V. Stepanshina, and I. Shemyakin, Predominance of multi-drug-resistant LAM and Beijing family strains among Mycobacterium tuberculosis isolates recovered from prison inmates in Tula Region, Russia, Journal of Medical Microbiology, vol.55, issue.10, pp.1413-1418, 2006.
DOI : 10.1099/jmm.0.46575-0

J. Kamerbeek, L. Schouls, A. Kolk, M. Van-agterveld, D. Van-soolingen et al., Simultaneous detection and strain differentiation of Mycobacterium tuberculosis for diagnosis and epidemiology, J. Clin. Microbiol, vol.35, pp.907-914, 1997.

K. Kremer, D. Van-soolingen, R. Frothingham, W. H. Haas, P. W. Hermans et al., Comparison of methods based on different molecular epidemiological markers for typing of Mycobacterium tuberculosis complex strains: interlaboratory study of discriminatory power and reproducibility, J. Clin. Microbiol, vol.37, pp.2607-2618, 1999.

L. C. Lazzarini, R. C. Huard, N. L. Boechat, H. M. Gomes, M. C. Oelemann et al., Discovery of a Novel Mycobacterium tuberculosis Lineage That Is a Major Cause of Tuberculosis in Rio de Janeiro, Brazil, Journal of Clinical Microbiology, vol.45, issue.12, pp.3891-3902, 2007.
DOI : 10.1128/JCM.01394-07

B. J. Marais, T. C. Victor, A. C. Hesseling, M. Barnard, A. Jordaan et al., Beijing and Haarlem Genotypes Are Overrepresented among Children with Drug-Resistant Tuberculosis in the Western Cape Province of South Africa, Journal of Clinical Microbiology, vol.44, issue.10, pp.3539-3543, 2006.
DOI : 10.1128/JCM.01291-06

M. Marmiesse, P. Brodin, C. Buchrieser, C. Gutierrez, N. Simoes et al., Macro-array and bioinformatic analyses reveal mycobacterial 'core' genes, p.6, 2004.
DOI : 10.1099/mic.0.26662-0

URL : http://mic.microbiologyresearch.org/deliver/fulltext/micro/150/2/483.pdf?itemId=/content/journal/micro/10.1099/mic.0.26662-0&mimeType=pdf&isFastTrackArticle=

A. Martin, F. Chaves, J. Inigo, M. Alonso, C. Sola et al., Molecular, epidemiological and infectivity characterisation of a Mycobacterium tuberculosis strain prevalent in Madrid, Clinical Microbiology and Infection, vol.13, issue.12, 2007.
DOI : 10.1111/j.1469-0691.2007.01820.x

M. Richardson, S. W. Van-lill, G. D. Van-der-spuy, Z. Munch, C. N. Booysen et al., Historic and recent events contribute to the disease dynamics of Beijing-like Mycobacterium tuberculosis isolates in a high incidence region, Int. J. Tuberc. Lung Dis, vol.6, pp.1001-1011, 2002.

M. Sebban, I. Mokrousov, N. Rastogi, and C. Sola, A data-mining approach to spacer oligonucleotide typing of Mycobacterium tuberculosis, Bioinformatics, vol.18, issue.2, pp.235-243, 2002.
DOI : 10.1093/bioinformatics/18.2.235

I. G. Shemyakin, V. N. Stepanshina, I. Y. Ivanov, M. Y. Lipin, V. A. Anisimova et al., Characterization of drug-resistant isolates of Mycobacterium tuberculosis derived from Russian inmates, Int. J. Tuberc. Lung Dis, vol.8, pp.1194-1203, 2004.

C. Sola, I. Filliol, E. Legrand, I. Mokrousov, and N. Rastogi, Mycobacterium tuberculosis Phylogeny Reconstruction Based on Combined Numerical Analysis with IS1081, IS6110, VNTR, and DR-Based Spoligotyping Suggests the Existence of Two New Phylogeographical Clades, Journal of Molecular Evolution, vol.53, issue.6, pp.680-689, 2001.
DOI : 10.1007/s002390010255

S. Sreevatsan, X. Pan, K. E. Stockbauer, N. D. Connell, B. N. Kreiswirth et al., Restricted structural gene polymorphism in the Mycobacterium tuberculosis complex indicates evolutionarily recent global dissemination, Proc. Natl. Acad. Sci. USA, pp.9869-9874, 1997.
DOI : 10.1073/pnas.93.7.3132

E. M. Streicher, T. C. Victor, G. Van-der-spuy, C. Sola, N. Rastogi et al., Spoligotype Signatures in the Mycobacterium tuberculosis Complex, Journal of Clinical Microbiology, vol.45, issue.1, pp.237-240, 2007.
DOI : 10.1128/JCM.01429-06

P. Supply, R. M. Warren, A. L. Banuls, S. Lesjean, G. D. Van-der-spuy et al., Linkage disequilibrium between minisatellite loci supports clonal evolution of Mycobacterium tuberculosis in a high tuberculosis incidence area, Molecular Microbiology, vol.3, issue.2, pp.529-538, 2003.
DOI : 10.1099/00221287-145-11-3283

J. D. Van-embden, T. Van-gorkom, K. Kremer, R. Jansen, B. A. Van-der-zeijst et al., Genetic Variation and Evolutionary Origin of the Direct Repeat Locus of Mycobacterium tuberculosis Complex Bacteria, Journal of Bacteriology, vol.182, issue.9, pp.2393-2401, 2000.
DOI : 10.1128/JB.182.9.2393-2401.2000

D. Van-soolingen, L. Qian, P. E. De-haas, J. T. Douglas, H. Traore et al., Predominance of a single genotype of Mycobacterium tuberculosis in countries of east Asia, J. Clin. Microbiol, vol.33, pp.3234-3238, 1995.

T. C. Victor, P. E. De-haas, A. M. Jordaan, G. D. Van-der-spuy, M. Richardson et al., Molecular Characteristics and Global Spread of Mycobacterium tuberculosis with a Western Cape F11 Genotype, Journal of Clinical Microbiology, vol.42, issue.2, pp.769-772, 2004.
DOI : 10.1128/JCM.42.2.769-772.2004

R. M. Warren, E. M. Streicher, S. L. Sampson, G. D. Van-der-spuy, M. Richardson et al., Microevolution of the Direct Repeat Region of Mycobacterium tuberculosis: Implications for Interpretation of Spoligotyping Data, Journal of Clinical Microbiology, vol.40, issue.12, pp.4457-4465, 2002.
DOI : 10.1128/JCM.40.12.4457-4465.2002

Z. Yang, P. F. Barnes, F. Chaves, K. D. Eisenach, S. E. Weis et al., Diversity of DNA fingerprints of Mycobacterium tuberculosis isolates in the United States, J. Clin. Microbiol, vol.36, pp.1003-1007, 1998.