L. Wayne, Mycobacterial speciation The mycobacteria: asourcebook , Par A, pp.25-65, 1984.

E. Stackebrandt and B. Goebel, Taxonomic Note: A Place for DNA-DNA Reassociation and 16S rRNA Sequence Analysis in the Present Species Definition in Bacteriology, International Journal of Systematic and Evolutionary Microbiology, vol.44, issue.4, pp.846-849, 1997.
DOI : 10.1099/00207713-44-4-846

E. Stackebrandt and B. Goebel, Taxonomic Note: A Place for DNA-DNA Reassociation and 16S rRNA Sequence Analysis in the Present Species Definition in Bacteriology, International Journal of Systematic and Evolutionary Microbiology, vol.44, issue.4, pp.846-849, 1994.
DOI : 10.1099/00207713-44-4-846

J. Goris, K. Konstantinidis, J. Klappenbach, T. Coenye, P. Vandamme et al., DNA???DNA hybridization values and their relationship to whole-genome sequence similarities, International Journal of Systematic and Evolutionary Microbiology, vol.57, issue.1, pp.81-91, 2007.
DOI : 10.1099/ijs.0.64483-0

K. Lehmann and R. N. , Lehmann's Medizin Handatlanten. X. Atlas and Grundriss der Bakteriologie une Lehrbuch der speciellen backteriologischen Diagnostik, 1907.

G. Reed, Genus Mycobacterium (species affecting warm-blooded animals except those causing leprosy, editor. Bergey's Manual of Determinative Bacteriology, pp.703-704, 1957.

J. Downey, Host-Plant Relations as Data for Butterfly Classification, Systematic Zoology, vol.11, issue.4, pp.150-159, 1962.
DOI : 10.2307/2411462

A. Karlson and E. Lessel, Mycobacterium bovis nom. nov., International Journal of Systematic Bacteriology, vol.20, issue.3, pp.273-282, 1970.
DOI : 10.1099/00207713-20-3-273

A. Aranaz, E. Liebana, E. Gomez-mampaso, J. Galan, D. Cousins et al., Mycobacterium tuberculosis subsp. caprae subsp. nov.: A taxonomic study of a new member of the Mycobacterium tuberculosis complex isolated from goats in Spain, International Journal of Systematic Bacteriology, vol.49, issue.3, pp.1263-1273, 1999.
DOI : 10.1099/00207713-49-3-1263

URL : https://hal.archives-ouvertes.fr/hal-00903043

D. Cousins, R. Bastida, A. Cataldi, V. Quse, S. Redrobe et al., Tuberculosis in seals caused by a novel member of the Mycobacterium tuberculosis complex: Mycobacterium pinnipedii sp. nov., INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, vol.53, issue.5, pp.1305-1314, 2003.
DOI : 10.1099/ijs.0.02401-0

J. Van-ingen, Z. Rahim, A. Mulder, M. Boeree, R. Simeone et al., Complex Subspecies, Emerging Infectious Diseases, vol.18, issue.4, pp.653-655, 2012.
DOI : 10.3201/eid1804.110888

M. Castets, H. Boisvert, F. Grumbach, M. Brunel, and N. Rist, Les bacilles tuberculeux de type africain: note préliminaire, Rev Tuberc Pneumol, vol.32, pp.179-184, 1968.

D. Van-soolingen, T. Hoogenboezem, P. De-haas, P. Hermans, M. Koedam et al., A Novel Pathogenic Taxon of the Mycobacterium tuberculosis Complex, Canetti: Characterization of an Exceptional Isolate from Africa, International Journal of Systematic Bacteriology, vol.47, issue.4, pp.1236-1245, 1997.
DOI : 10.1099/00207713-47-4-1236

Y. Blouin, Y. Hauck, C. Soler, M. Fabre, R. Vong et al., Significance of the Identification in the Horn of Africa of an Exceptionally Deep Branching Mycobacterium tuberculosis Clade, PLoS ONE, vol.43, issue.12, p.23300794, 2012.
DOI : 10.1371/journal.pone.0052841.s009

URL : https://hal.archives-ouvertes.fr/hal-00772379

P. Supply, M. Marceau, S. Mangenot, D. Roche, C. Rouanet et al., Genomic analysis of smooth tubercle bacilli provides insights into ancestry and pathoadaptation of Mycobacterium tuberculosis, Nature Genetics, vol.174, issue.2, pp.172-179, 2013.
DOI : 10.1093/infdis/jiq089

Y. Blouin, G. Cazajous, C. Dehan, C. Soler, R. Vong et al., ??? Clone Responsible for Lymph Node Tuberculosis Epidemic, Djibouti, Emerging Infectious Diseases, vol.20, issue.1, pp.21-28, 2014.
DOI : 10.3201/eid2001.130652

A. Laszlo, P. Gill, V. Handzel, M. Hodgkin, and D. Helbecque, Conventional and radiometric drug susceptibility testing of Mycobacterium tuberculosis complex, J Clin Microbiol, vol.18, pp.1335-1339, 1983.

T. Wirth, F. Hildebrand, C. Allix-beguec, F. Wolbeling, 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

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.406-409, 1993.

P. Groenen, A. Bunschoten, D. Van-soolingen, and J. Van-embden, Nature of DNA polymorphism in the direct repeat cluster of Mycobacterium tuberculosis; application for strain differentiation by a novel typing method, Molecular Microbiology, vol.85, issue.5, pp.1057-1065, 1993.
DOI : 10.1016/0923-2508(92)90104-V

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.

C. Sola, A. Devallois, L. Horgen, J. Maisetti, I. Filliol et al., Tuberculosis in the Caribbean: Using Spacer Oligonucleotide Typing to Understand Strain Origin and Transmission, Emerging Infectious Diseases, vol.5, issue.3, pp.404-414, 1999.
DOI : 10.3201/eid0503.990311

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 Microbiol, vol.6, pp.23-16519816, 2006.

C. Demay, B. Liens, T. Burguière, V. Hill, D. Couvin et al., SITVITWEB ??? A publicly available international multimarker database for studying Mycobacterium tuberculosis genetic diversity and molecular epidemiology, Infection, Genetics and Evolution, vol.12, issue.4, 2012.
DOI : 10.1016/j.meegid.2012.02.004

URL : https://hal.archives-ouvertes.fr/pasteur-00691750

J. Van-embden, T. Van-gorkom, K. Kremer, R. Jansen, B. 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

A. Van-der-zanden, K. Kremer, L. Schouls, K. Caimi, A. Cataldi et al., Improvement of Differentiation and Interpretability of Spoligotyping for Mycobacterium tuberculosis Complex Isolates by Introduction of New Spacer Oligonucleotides, Journal of Clinical Microbiology, vol.40, issue.12, pp.4628-4639, 2002.
DOI : 10.1128/JCM.40.12.4628-4639.2002

J. Reyes, A. Francis, and M. Tanaka, Models of deletion for visualizing bacterial variation: an application to tuberculosis spoligotypes, BMC Bioinformatics, vol.9, issue.1, 2008.
DOI : 10.1186/1471-2105-9-496

E. Streicher, T. 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

D. Van-soolingen, L. Qian, P. De-haas, J. 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.

K. Kremer, D. Van-soolingen, R. Frothingham, W. Haas, P. 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.

R. Warren, E. Streicher, S. Sampson, V. D. Spuy, G. 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

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

M. Kato-maeda, S. Gagneux, L. Flores, E. Kim, P. Small et al., Strain classification of Mycobacterium tuberculosis: congruence between large sequence polymorphisms and spoligotypes, Int J Tuberc Lung Dis, vol.15, pp.131-133, 2011.

C. Borile, M. Labarre, S. Franz, C. Sola, and G. Refregier, Using affinity propagation for identifying subspecies among clonal organisms: lessons from M. tuberculosis, BMC Bioinformatics, vol.12, issue.1, p.21635750, 2011.
DOI : 10.1128/JCM.42.9.3958-3962.2004

URL : https://hal.archives-ouvertes.fr/pasteur-00670608

I. Vitol, J. Driscoll, B. Kreiswirth, N. Kurepina, and K. Bennett, Identifying Mycobacterium tuberculosis complex strain families using spoligotypes, Infection, Genetics and Evolution, vol.6, issue.6, pp.491-504, 2006.
DOI : 10.1016/j.meegid.2006.03.003

A. Shabbeer, L. Cowan, C. Ozcaglar, N. Rastogi, S. Vandenberg et al., TB-Lineage: An online tool for classification and analysis of strains of Mycobacterium tuberculosis complex, Infection, Genetics and Evolution, vol.12, issue.4, pp.789-797, 2012.
DOI : 10.1016/j.meegid.2012.02.010

URL : https://hal.archives-ouvertes.fr/pasteur-00691749

R. Hershberg, M. Lipatov, P. Small, H. Sheffer, S. Niemann et al., High Functional Diversity in Mycobacterium tuberculosis Driven by Genetic Drift and Human Demography, PLoS Biology, vol.50, issue.12, 2008.
DOI : 10.1371/journal.pbio.0060311.st006

R. Brosch, S. Gordon, M. Marmiesse, P. Brodin, C. Buchrieser et al., complex, Proceedings of the National Academy of Sciences, vol.99, issue.6, pp.3684-3689, 2002.
DOI : 10.1073/pnas.052548299

A. Tsolaki, A. Hirsh, K. Deriemer, J. Enciso, M. Wong et al., Functional and evolutionary genomics of Mycobacterium tuberculosis: Insights from genomic deletions in 100 strains, Proceedings of the National Academy of Sciences, vol.101, issue.14, pp.4865-4870, 2004.
DOI : 10.1073/pnas.0305634101

R. Frothingham and W. Meeker-o-'connell, Genetic diversity in the Mycobacterium tuberculosis complex based on variable numbers of tandem DNA repeats, Microbiology, vol.144, issue.5, pp.1189-1196, 1998.
DOI : 10.1099/00221287-144-5-1189

P. Supply, E. Mazars, S. Lesjean, V. Vincent, B. Gicquel et al., Variable human minisatellite-like regions in the Mycobacterium tuberculosis genome, Molecular Microbiology, vol.59, issue.3, pp.762-771, 2000.
DOI : 10.1046/j.1365-2958.2000.01905.x

E. Mazars, S. Lesjean, A. Banuls, M. Gilbert, V. Vincent et al., High-resolution minisatellite-based typing as a portable approach to global analysis of Mycobacterium tuberculosis molecular epidemiology, Proceedings of the National Academy of Sciences, vol.98, issue.4, pp.1901-1906, 2001.
DOI : 10.1073/pnas.98.4.1901

C. Sola, I. Filliol, E. Legrand, S. Lesjean, C. Locht et al., Genotyping of the Mycobacterium tuberculosis complex using MIRUs: association with VNTR and spoligotyping for molecular epidemiology and evolutionary genetics, Infection, Genetics and Evolution, vol.3, issue.2, pp.125-133, 2003.
DOI : 10.1016/S1567-1348(03)00011-X

C. Allix-beguec, M. Fauville-dufaux, and P. Supply, Three-Year Population-Based Evaluation of Standardized Mycobacterial Interspersed Repetitive-Unit-Variable-Number Tandem-Repeat Typing of Mycobacterium tuberculosis, Journal of Clinical Microbiology, vol.46, issue.4, pp.1398-1406, 2008.
DOI : 10.1128/JCM.02089-07

T. Weniger, J. Krawczyk, P. Supply, S. Niemann, and D. Harmsen, MIRU-VNTRplus: a web tool for polyphasic genotyping of Mycobacterium tuberculosis complex bacteria, Nucleic Acids Research, vol.38, issue.Web Server, pp.326-331, 2010.
DOI : 10.1093/nar/gkq351

A. Schurch, K. Kremer, A. Kiers, M. Boeree, R. Siezen et al., Preferential Deletion Events in the Direct Repeat Locus of Mycobacterium tuberculosis, Journal of Clinical Microbiology, vol.49, issue.4, pp.1318-1322, 2011.
DOI : 10.1128/JCM.01848-10

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.4498-4510, 2006.
DOI : 10.1128/JCM.01392-06

C. Allix-beguec, D. Harmsen, T. Weniger, P. Supply, and S. Niemann, Evaluation and user-strategy of MIRU-VNTRplus, a multifunctional database for on-line analysis of genotyping data and phylogenetic identification of Mycobacterium tuberculosis complex isolates, J Clin Microbiol, 2008.

K. Kremer, C. Arnold, A. Cataldi, M. Gutierrez, W. Haas et al., Discriminatory Power and Reproducibility of Novel DNA Typing Methods for Mycobacterium tuberculosis Complex Strains, Journal of Clinical Microbiology, vol.43, issue.11, pp.5628-5638, 2005.
DOI : 10.1128/JCM.43.11.5628-5638.2005

C. Oelemann, M. Gomes, H. Willery, E. Possuelo, L. et al., The forest behind the tree: phylogenetic exploration of a dominant Mycobacterium tuberculosis strain lineage from a high tuberculosis burden country, PLoS One, vol.6, p.21464915, 2011.

M. Yasmin, M. Gomgnimbou, R. Siddiqui, G. Refregier, and C. Sola, Multi-drug resistant Mycobacterium tuberculosis complex genetic diversity and clues on recent transmission in Punjab, Pakistan, Infection, Genetics and Evolution, vol.27, pp.6-14, 2014.
DOI : 10.1016/j.meegid.2014.06.017

J. Evans, S. Wani, R. Anderson, L. Gibson, A. Smith et al., A geographically-restricted but prevalent Mycobacterium tuberculosis strain identified in the West Midlands Region of the UK between, PLoS One, vol.6, p.21464965, 1995.

I. Filliol, J. Driscoll, D. Van-soolingen, B. 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

E. Abadia, J. Zhang, T. Vultos, V. Ritacco, K. Kremer et al., Resolving lineage assignation on Mycobacterium tuberculosis clinical isolates classified by spoligotyping with a new high-throughput 3R SNPs based method, Infection, Genetics and Evolution, vol.10, issue.7, pp.1066-1074, 2010.
DOI : 10.1016/j.meegid.2010.07.006

S. Homolka, M. Projahn, S. Feuerriegel, T. Ubben, R. Diel et al., High Resolution Discrimination of Clinical Mycobacterium tuberculosis Complex Strains Based on Single Nucleotide Polymorphisms, PLoS ONE, vol.1, issue.7, p.22768315, 2012.
DOI : 10.1371/journal.pone.0039855.s006

S. Niemann, C. Koser, S. Gagneux, C. Plinke, S. Homolka et al., Genomic Diversity among Drug Sensitive and Multidrug Resistant Isolates of Mycobacterium tuberculosis with Identical DNA Fingerprints, PLoS ONE, vol.43, issue.10, 2009.
DOI : 10.1371/journal.pone.0007407.s006

T. Walker, C. Ip, R. Harrell, J. Evans, G. Kapatai et al., Whole-genome sequencing to delineate Mycobacterium tuberculosis outbreaks: a retrospective observational study, The Lancet Infectious Diseases, vol.13, issue.2, pp.137-146, 2013.
DOI : 10.1016/S1473-3099(12)70277-3

J. Bryant, A. Schurch, H. Van-deutekom, S. Harris, J. De-beer et al., Inferring patient to patient transmission of Mycobacterium tuberculosis from whole genome sequencing data, BMC Infect Dis, vol.13, p.23446317, 2013.

A. Schurch, K. Kremer, O. Daviena, A. Kiers, M. Boeree et al., High-Resolution Typing by Integration of Genome Sequencing Data in a Large Tuberculosis Cluster, Journal of Clinical Microbiology, vol.48, issue.9, pp.3403-3406, 2010.
DOI : 10.1128/JCM.00370-10

F. Coll, R. Mcnerney, J. Guerra-assuncao, J. Glynn, J. Perdigao et al., A robust SNP barcode for typing Mycobacterium tuberculosis complex strains, Nature Communications, vol.5, p.25176035, 2014.
DOI : 10.1080/10635150802429642

F. Coll, M. Preston, J. Guerra-assuncao, G. Hill-cawthorn, D. Harris et al., PolyTB: A genomic variation map for Mycobacterium tuberculosis, Tuberculosis, vol.94, issue.3, pp.346-354, 2014.
DOI : 10.1016/j.tube.2014.02.005

D. Amancio, C. Comin, D. Casanova, G. Travieso, O. Bruno et al., A Systematic Comparison of Supervised Classifiers, PLoS ONE, vol.5, issue.3, p.24763312, 2014.
DOI : 10.1371/journal.pone.0094137.s001

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

R. Bouckaert, DensiTree: making sense of sets of phylogenetic trees, Bioinformatics, vol.26, issue.10, pp.1372-1373, 2010.
DOI : 10.1093/bioinformatics/btq110

I. Amarreh, M. Meyerand, C. Stafstrom, B. Hermann, and R. Birn, Individual classification of children with epilepsy using support vector machine with multiple indices of diffusion tensor imaging, NeuroImage: Clinical, vol.4, pp.757-764, 2014.
DOI : 10.1016/j.nicl.2014.02.006

M. Ghorbani, S. Taylor, M. Pook, and A. Payne, Comparative (Computational) Analysis of the DNA Methylation Status of Trinucleotide Repeat Expansion Diseases, Journal of Nucleic Acids, vol.22, issue.1, pp.689798-689808, 2013.
DOI : 10.1016/S0361-9230(01)00572-X

R. Sloot, M. Borgdorff, J. De-beer, J. Van-ingen, P. Supply et al., Clustering of Tuberculosis Cases Based on Variable-Number Tandem-Repeat Typing in Relation to the Population Structure of Mycobacterium tuberculosis in the Netherlands, Journal of Clinical Microbiology, vol.51, issue.7, pp.2427-2431, 2013.
DOI : 10.1128/JCM.00489-13

D. Van-soolingen, P. Hermans, P. De-haas, D. Sool, and J. Van-embden, The occurence and stability of insertion sequences in Mycobacterium tuberculosis complex strains: evaluation of an insertion sequence-dependent DNA polymorphism as a tool in the epidemiology of tuberculosis, J Clin Microbiol, vol.29, pp.2578-2586, 1991.

L. Cowan, L. Diem, M. Brake, and J. Crawford, Transfer of a Mycobacterium tuberculosis Genotyping Method, Spoligotyping, from a Reverse Line-Blot Hybridization, Membrane-Based Assay to the Luminex Multianalyte Profiling System, Journal of Clinical Microbiology, vol.42, issue.1, pp.474-477, 2004.
DOI : 10.1128/JCM.42.1.474-477.2004

J. Zhang, E. Abadia, G. Refregier, S. Tafaj, M. Boschiroli et al., Mycobacterium tuberculosis complex CRISPR genotyping: improving efficiency, throughput and discriminative power of 'spoligotyping' with new spacers and a microbead-based hybridization assay, Journal of Medical Microbiology, vol.59, issue.3, pp.285-294, 2010.
DOI : 10.1099/jmm.0.016949-0

URL : https://hal.archives-ouvertes.fr/hal-00527223

I. Filliol, J. Driscoll, D. Van-soolingen, B. Kreiswirth, K. Kremer et al., Global Distribution of Mycobacterium tuberculosis Spoligotypes, Emerging Infectious Diseases, vol.8, issue.11, pp.1347-1350, 2002.
DOI : 10.3201/eid0811.020125

I. Filliol, F. S. Negroni, L. Sola, C. Rastogi, and N. , Molecular typing of Mycobacterium tuberculosis based on variable number of tandem DNA repeats (VNTR) used alone, and in association with spoligotyping, J Clin Microbiol, vol.38, pp.2520-2524, 2000.

G. Who, S. Who, . Cds, and . Tb, Global Tuberculosis Control: Surveillance, Planning, Financing, WHO, vol.295, p.295, 2002.

J. De-beer, J. Van-ingen, G. De-vries, C. Erkens, M. Sebek et al., Comparative Study of IS6110 Restriction Fragment Length Polymorphism and Variable-Number Tandem-Repeat Typing of Mycobacterium tuberculosis Isolates in the Netherlands, Based on a 5-Year Nationwide Survey, Journal of Clinical Microbiology, vol.51, issue.4, pp.1193-1198, 2013.
DOI : 10.1128/JCM.03061-12

M. Murray, Sampling Bias in the Molecular Epidemiology of Tuberculosis, Emerging Infectious Diseases, vol.8, issue.4, pp.363-369, 2002.
DOI : 10.3201/eid0804.000444

T. Walker, P. Monk, E. Smith, and T. Peto, Contact investigations for outbreaks of Mycobacterium tuberculosis: advances through whole genome sequencing, Clinical Microbiology and Infection, vol.19, issue.9, pp.796-802, 2013.
DOI : 10.1111/1469-0691.12183

P. Small, P. Hopewell, S. Singh, A. Paz, J. Parsonnet et al., The Epidemiology of Tuberculosis in San Francisco -- A Population-Based Study Using Conventional and Molecular Methods, New England Journal of Medicine, vol.330, issue.24, pp.1703-1709, 1994.
DOI : 10.1056/NEJM199406163302402

L. Lawson, J. Zhang, M. Gomgnimbou, S. Abdurrahman, L. Moullec et al., A Molecular Epidemiological and Genetic Diversity Study of Tuberculosis in Ibadan, Nnewi and Abuja, Nigeria, PLoS ONE, vol.6, issue.6, p.22723859, 2012.
DOI : 10.1371/journal.pone.0038409.s001

URL : https://hal.archives-ouvertes.fr/hal-00763747

I. Mokrousov, A. Vyazovaya, and O. Narvskaya, Mycobacterium tuberculosis Latin American-Mediterranean Family and Its Sublineages in the Light of Robust Evolutionary Markers, Journal of Bacteriology, vol.196, issue.10, pp.1833-1841, 2014.
DOI : 10.1128/JB.01485-13

S. Niobe-eyangoh, C. Kuaban, P. Sorlin, P. Cunin, J. Thonnon et al., Genetic Biodiversity of Mycobacterium tuberculosis Complex Strains from Patients with Pulmonary Tuberculosis in Cameroon, Journal of Clinical Microbiology, vol.41, issue.6, pp.2547-2553, 2003.
DOI : 10.1128/JCM.41.6.2547-2553.2003

S. Niobe-eyangoh, C. Kuaban, P. Sorlin, J. Thonnon, V. Vincent et al., Molecular Characteristics of Strains of the Cameroon Family, the Major Group of Mycobacterium tuberculosis in a Country with a High Prevalence of Tuberculosis, Journal of Clinical Microbiology, vol.42, issue.11, pp.5029-5035, 2004.
DOI : 10.1128/JCM.42.11.5029-5035.2004

L. Fenner, B. Malla, B. Ninet, O. Dubuis, D. Stucki et al., ???Pseudo-Beijing???: Evidence for Convergent Evolution in the Direct Repeat Region of Mycobacterium tuberculosis, PLoS ONE, vol.164, issue.9, p.21935448, 2011.
DOI : 10.1371/journal.pone.0024737.t002

N. Lan, H. Lien, L. Tung, M. Borgdorff, K. Kremer et al., Beijing Genotype and Risk for Treatment Failure and Relapse, Vietnam, Emerging Infectious Diseases, vol.9, issue.12, pp.1633-1635, 2003.
DOI : 10.3201/eid0912.030169

M. Borgdorff, M. Van-der-werf, P. De-haas, K. Kremer, and D. Van-soolingen, Tuberculosis Elimination in the Netherlands, Emerging Infectious Diseases, vol.11, issue.4, pp.597-602, 2005.
DOI : 10.3201/eid1104.041103