-
1
-
-
0032508046
-
Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence
-
Cole ST, Brosch R, Parkhill J, Garnier T, Churcher C, Harris D, et al. Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence. Nature. 1998;393:537-44. http://dx.doi.org/10.1038/31159
-
(1998)
Nature
, vol.393
, pp. 537-544
-
-
Cole, S.T.1
Brosch, R.2
Parkhill, J.3
Garnier, T.4
Churcher, C.5
Harris, D.6
-
2
-
-
78149243438
-
Mycobacterium africanumreview of an important cause of human tuberculosis in West Africa
-
de Jong BC, Antonio M, Gagneux S. Mycobacterium africanumreview of an important cause of human tuberculosis in West Africa. PLoS Negl Trop Dis. 2010;4:e744. http://dx.doi.org/10.1371/journal.pntd.0000744
-
(2010)
PLoS Negl Trop Dis
, vol.4
-
-
de Jong, B.C.1
Antonio, M.2
Gagneux, S.3
-
3
-
-
77951051763
-
Ancient origin and gene mosaicism of the progenitor of Mycobacterium tuberculosis
-
Gutierrez MC, Brisse S, Brosch R, Fabre M, Omaïs B, Marmiesse M, et al. Ancient origin and gene mosaicism of the progenitor of Mycobacterium tuberculosis. PLoS Pathog. 2005;1:e5. http://dx.doi.org/10.1371/journal.ppat.0010005
-
(2005)
PLoS Pathog
, vol.1
-
-
Gutierrez, M.C.1
Brisse, S.2
Brosch, R.3
Fabre, M.4
Omaïs, B.5
Marmiesse, M.6
-
4
-
-
0037133653
-
A new evolutionary scenario for the Mycobacterium tuberculosis complex
-
Brosch R, Gordon SV, Marmiesse M, Brodin P, Buchrieser C, Eiglmeier K, et al. A new evolutionary scenario for the Mycobacterium tuberculosis complex. Proc Natl Acad Sci U S A. 2002;99:3684-9. http://dx.doi.org/10.1073/pnas.052548299
-
(2002)
Proc Natl Acad Sci U S A
, vol.99
, pp. 3684-3689
-
-
Brosch, R.1
Gordon, S.V.2
Marmiesse, M.3
Brodin, P.4
Buchrieser, C.5
Eiglmeier, K.6
-
5
-
-
33744967088
-
Novel genetic polymorphisms that further delineate the phylogeny of the Mycobacterium tuberculosis
-
Huard RC, Fabre M, de Haas P, Claudio Oliveira Lazzarini L, van Soolingen D, Cousins D, et al. Novel genetic polymorphisms that further delineate the phylogeny of the Mycobacterium tuberculosis. J Bacteriol. 2006;188:4271-87. http://dx.doi.org/10.1128/JB.01783-05
-
(2006)
J Bacteriol
, vol.188
, pp. 4271-4287
-
-
Huard, R.C.1
Fabre, M.2
de Haas, P.3
Claudio, O.L.L.4
van Soolingen, D.5
Cousins, D.6
-
6
-
-
84858644452
-
Characterization of Mycobacterium orygis as M. tuberculosis complex subspecies
-
van Ingen J, Rahim Z, Mulder A, Boeree MJ, Simeone R, Brosch R, et al. Characterization of Mycobacterium orygis as M. tuberculosis complex subspecies. Emerg Infect Dis. 2012;18:653-5. http://dx.doi.org/10.3201/eid1804.110888
-
(2012)
Emerg Infect Dis
, vol.18
, pp. 653-655
-
-
van Ingen, J.1
Rahim, Z.2
Mulder, A.3
Boeree, M.J.4
Simeone, R.5
Brosch, R.6
-
7
-
-
33644531249
-
Variable host-pathogen compatibility in Mycobacterium tuberculosis
-
Gagneux S, DeRiemer K, Van T, Kato-Maeda M, de Jong BC, Narayanan S, et al. Variable host-pathogen compatibility in Mycobacterium tuberculosis. Proc Natl Acad Sci U S A. 2006;103:2869-73. http://dx.doi.org/10.1073/pnas.0511240103
-
(2006)
Proc Natl Acad Sci U S A
, vol.103
, pp. 2869-2873
-
-
Gagneux, S.1
Deriemer, K.2
Van, T.3
Kato-Maeda, M.4
de Jong, B.C.5
Narayanan, S.6
-
8
-
-
0036642396
-
Genomic deletions suggest a phylogeny for the Mycobacterium tuberculosis complex
-
Mostowy S, Cousins D, Brinkman J, Aranaz A, Behr M. Genomic deletions suggest a phylogeny for the Mycobacterium tuberculosis complex. J Infect Dis. 2002;186:74-80. http://dx.doi.org/10.1086/341068
-
(2002)
J Infect Dis
, vol.186
, pp. 74-80
-
-
Mostowy, S.1
Cousins, D.2
Brinkman, J.3
Aranaz, A.4
Behr, M.5
-
9
-
-
0037596510
-
The complete genome sequence of Mycobacterium bovis
-
Garnier T, Eiglmeier K, Camus JC, Medina N, Mansoor H, Pryor M, et al. The complete genome sequence of Mycobacterium bovis. Proc Natl Acad Sci U S A. 2003;100:7877-82. http://dx.doi.org/10.1073/pnas.1130426100
-
(2003)
Proc Natl Acad Sci U S A
, vol.100
, pp. 7877-7882
-
-
Garnier, T.1
Eiglmeier, K.2
Camus, J.C.3
Medina, N.4
Mansoor, H.5
Pryor, M.6
-
10
-
-
33644617473
-
Ecotypes of the Mycobacterium tuberculosis complex
-
Smith NH, Kremer K, Inwald J, Dale J, Driscoll JR, Gordon SV, et al. Ecotypes of the Mycobacterium tuberculosis complex. J Theor Biol. 2006;239:220-5. http://dx.doi.org/10.1016/j.jtbi.2005.08.036
-
(2006)
J Theor Biol
, vol.239
, pp. 220-225
-
-
Smith, N.H.1
Kremer, K.2
Inwald, J.3
Dale, J.4
Driscoll, J.R.5
Gordon, S.V.6
-
11
-
-
0028020888
-
Tuberculosis in imported hyrax (Procavia capensis) caused by an unusual variant belonging to the Mycobacterium tuberculosis complex
-
Cousins DV, Peet RL, Gaynor WT, Williams SN, Gow BL. Tuberculosis in imported hyrax (Procavia capensis) caused by an unusual variant belonging to the Mycobacterium tuberculosis complex. Vet Microbiol. 1994;42:135-45. http://dx.doi.org/10.1016/0378-1135(94)90013-2
-
(1994)
Vet Microbiol
, vol.42
, pp. 135-145
-
-
Cousins, D.V.1
Peet, R.L.2
Gaynor, W.T.3
Williams, S.N.4
Gow, B.L.5
-
12
-
-
77956042547
-
Novel Mycobacterium tuberculosis complex pathogen, M. mungi
-
Alexander KA, Laver PN, Michel AL, Williams M, van Helden PD, Warren RM, et al. Novel Mycobacterium tuberculosis complex pathogen, M. mungi. Emerg Infect Dis. 2010;16:1296-9. http://dx.doi.org/10.3201/eid1608.100314
-
(2010)
Emerg Infect Dis
, vol.16
, pp. 1296-1299
-
-
Alexander, K.A.1
Laver, P.N.2
Michel, A.L.3
Williams, M.4
van Helden, P.D.5
Warren, R.M.6
-
13
-
-
33744900074
-
Pathogens as drivers of population declines: The importance of systematic monitoring in great apes and other threatened mammals
-
Leendertz FH, Pauli G, Maetz-Rensing K, Boardman W, Nunn C, Ellerbrok H, et al. Pathogens as drivers of population declines: the importance of systematic monitoring in great apes and other threatened mammals. Biol Conserv. 2006;131:325-37. http://dx.doi.org/10.1016/j.biocon.2006.05.002
-
(2006)
Biol Conserv
, vol.131
, pp. 325-337
-
-
Leendertz, F.H.1
Pauli, G.2
Maetz-Rensing, K.3
Nunn, C.4
Ellerbrok, H.5
-
14
-
-
79961242178
-
A novel multiplex real-time PCR for the identification of Mycobacteria associated with zoonotic tuberculosis
-
Reddington K, O'Grady J, Dorai-Raj S, Niemann S, van Soolingen D, Barry T. A novel multiplex real-time PCR for the identification of Mycobacteria associated with zoonotic tuberculosis. PLoS ONE. 2011;6:e23481. http://dx.doi.org/10.1371/journal.pone.0023481
-
(2011)
PLoS ONE
, vol.6
-
-
Reddington, K.1
O'Grady, J.2
Dorai-Raj, S.3
Niemann, S.4
van Soolingen, D.5
Barry, T.6
-
15
-
-
0004265596
-
-
New York: Greene Publishing Associated and Wiley-Interscience
-
Ausubel FM, Brent R, Kingston RE, Moore DD, Seidman JG, Smith JA, et al. Current protocols in molecular biology. New York: Greene Publishing Associated and Wiley-Interscience; 1987.
-
(1987)
Current Protocols In Molecular Biology
-
-
Ausubel, F.M.1
Brent, R.2
Kingston, R.E.3
Moore, D.D.4
Seidman, J.G.5
Smith, J.A.6
-
16
-
-
34247152126
-
Global phylogeography of Mycobacterium tuberculosis and implications for tuberculosis product development
-
Gagneux S, Small PM. Global phylogeography of Mycobacterium tuberculosis and implications for tuberculosis product development. Lancet Infect Dis. 2007;7:328-37. http://dx.doi.org/10.1016/S14733099(07)70108-1
-
(2007)
Lancet Infect Dis
, vol.7
, pp. 328-337
-
-
Gagneux, S.1
Small, P.M.2
-
17
-
-
58149174244
-
High functional diversity in Mycobacterium tuberculosis driven by genetic drift and human demography
-
Hershberg R, Lipatov M, Small PM, Sheffer H, Niemann S, Homolka S, et al. High functional diversity in Mycobacterium tuberculosis driven by genetic drift and human demography. PLoS Biol. 2008;6:e311. http://dx.doi.org/10.1371/journal.pbio.0060311
-
(2008)
PLoS Biol
, vol.6
-
-
Hershberg, R.1
Lipatov, M.2
Small, P.M.3
Sheffer, H.4
Niemann, S.5
Homolka, S.6
-
18
-
-
67649884743
-
Fast and accurate short read alignment with Burrows Wheeler transform
-
Li H, Durbin R. Fast and accurate short read alignment with Burrows Wheeler transform. Bioinformatics. 2009;25:1754-60. http://dx.doi.org/10.1093/bioinformatics/btp324
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
19
-
-
77952841173
-
Human T cell epitopes of Mycobacterium tuberculosis are evolutionarily hyperconserved
-
Comas I, Chakravartti J, Small PM, Galagan J, Niemann S, Kremer K, et al. Human T cell epitopes of Mycobacterium tuberculosis are evolutionarily hyperconserved. Nat Genet. 2010;42:498-503. http://dx.doi.org/10.1038/ng.590
-
(2010)
Nat Genet
, vol.42
, pp. 498-503
-
-
Comas, I.1
Chakravartti, J.2
Small, P.M.3
Galagan, J.4
Niemann, S.5
Kremer, K.6
-
20
-
-
68549104404
-
The sequence alignment/map format and SAMtools
-
Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, et al. The sequence alignment/map format and SAMtools. Bioinformatics. 2009;25:2078-9. http://dx.doi.org/10.1093/bioinformatics/btp352
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
Handsaker, B.2
Wysoker, A.3
Fennell, T.4
Ruan, J.5
Homer, N.6
-
21
-
-
3042631307
-
Genome sequence assembly using trace signals and additional sequence information
-
Braunschweig (Germany): GBF Braunschweig Department of Bioinformatics
-
Chevreux B, Wetter T, Suhai S. Genome sequence assembly using trace signals and additional sequence information. In: Computer science and biology: proceedings of the German Conference on Bioinformatics. Braunschweig (Germany): GBF Braunschweig Department of Bioinformatics; 1999. p. 45-56.
-
(1999)
Computer Science and Biology: Proceedings of the German Conference On Bioinformatics
, pp. 45-56
-
-
Chevreux, B.1
Wetter, T.2
Suhai, S.3
-
22
-
-
68549115571
-
Reordering contigs of draft genomes using the Mauve Aligner
-
Rissman AI, Mau B, Biehl BS, Darling AE, Glasner JD, Perna NT. Reordering contigs of draft genomes using the Mauve Aligner. Bioinformatics. 2009;25:2071-3. http://dx.doi.org/10.1093/bioinformatics/btp356
-
(2009)
Bioinformatics
, vol.25
, pp. 2071-2073
-
-
Rissman, A.I.1
Mau, B.2
Biehl, B.S.3
Darling, A.E.4
Glasner, J.D.5
Perna, N.T.6
-
23
-
-
34547781750
-
MEGA4: Molecular evolutionary genetics analysis (MEGA) software version 4.0
-
Tamura K, Dudley J, Nei M, Kumar S. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol. 2007;24:1596-9. http://dx.doi.org/10.1093/molbev/msm092
-
(2007)
Mol Biol Evol
, vol.24
, pp. 1596-1599
-
-
Tamura, K.1
Dudley, J.2
Nei, M.3
Kumar, S.4
-
24
-
-
45849154165
-
jModelTest: Phylogenetic model averaging
-
Posada D. jModelTest: Phylogenetic model averaging. Mol Biol Evol. 2008;25:1253-6. http://dx.doi.org/10.1093/molbev/msn083
-
(2008)
Mol Biol Evol
, vol.25
, pp. 1253-1256
-
-
Posada, D.1
-
25
-
-
23144433822
-
PHYML Online-a web server for fast maximum likelihood-based phylogenetic inference
-
Guindon S, Lethiec F, Duroux P, Gascuel O. PHYML Online-a web server for fast maximum likelihood-based phylogenetic inference. Nucleic Acids Res. 2005;33:W557-9. http://dx.doi.org/10.1093/nar/gki352
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Guindon, S.1
Lethiec, F.2
Duroux, P.3
Gascuel, O.4
-
26
-
-
0041386108
-
MrBayes 3: Bayesian phylogenetic inference under mixed models
-
Ronquist F, Huelsenbeck JP. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics. 2003;19:1572-4. http://dx.doi.org/10.1093/bioinformatics/btg180
-
(2003)
Bioinformatics
, vol.19
, pp. 1572-1574
-
-
Ronquist, F.1
Huelsenbeck, J.P.2
-
27
-
-
0030911908
-
Simultaneous detection and strain differentiation of Mycobacterium tuberculosis for diagnosis and epidemiology
-
Kamerbeek J, Schouls L, Kolk A, van Agterveld M, van Soolingen D, Kuijper S, et al. Simultaneous detection and strain differentiation of Mycobacterium tuberculosis for diagnosis and epidemiology. J Clin Microbiol. 1997;35:907-14.
-
(1997)
J Clin Microbiol
, vol.35
, pp. 907-914
-
-
Kamerbeek, J.1
Schouls, L.2
Kolk, A.3
van Agterveld, M.4
van Soolingen, D.5
Kuijper, S.6
-
28
-
-
33646566864
-
Study of the gyrB gene polymorphism as a tool to differentiate among Mycobacterium tuberculosis complex subspecies further underlines the older evolutionary age of Mycobacterium canettii
-
Goh KS, Fabre M, Huard RC, Schmid S, Sola C, Rastogi N. Study of the gyrB gene polymorphism as a tool to differentiate among Mycobacterium tuberculosis complex subspecies further underlines the older evolutionary age of Mycobacterium canettii. Mol Cell Probes. 2006;20:182-90. http://dx.doi.org/10.1016/j.mcp.2005.11.008
-
(2006)
Mol Cell Probes
, vol.20
, pp. 182-190
-
-
Goh, K.S.1
Fabre, M.2
Huard, R.C.3
Schmid, S.4
Sola, C.5
Rastogi, N.6
-
29
-
-
84857878540
-
The genome of Mycobacterium africanum West African 2 reveals a lineage-specific locus and genome erosion common to the M. tuberculosis complex
-
Bentley SD, Comas IÃ, Bryant JM, Walker D, Smith NH, Harris SR, et al. 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. 2012;6:e1552. http://dx.doi.org/10.1371/journal.pntd.0001552
-
(2012)
PLoS Negl Trop Dis
, vol.6
-
-
Bentley, S.D.1
Comas, I.Ã.2
Bryant, J.M.3
Walker, D.4
Smith, N.H.5
Harris, S.R.6
-
30
-
-
84859926842
-
SITVITWEB-a publicly available international multimarker database for studying Mycobacterium tuberculosis genetic diversity and molecular epidemiology
-
Demay C, Liens B, Burguiere T, Hill V, Couvin D, Millet J, et al. SITVITWEB-a publicly available international multimarker database for studying Mycobacterium tuberculosis genetic diversity and molecular epidemiology. Infect Genet Evol. 2012;12:755-66. http://dx.doi.org/10.1016/j.meegid.2012.02.004
-
(2012)
Infect Genet Evol
, vol.12
, pp. 755-766
-
-
Demay, C.1
Liens, B.2
Burguiere, T.3
Hill, V.4
Couvin, D.5
Millet, J.6
-
31
-
-
3843146244
-
Genomic analysis distinguishes Mycobacterium africanum
-
Mostowy S, Onipede A, Gagneux S, Niemann S, Kremer K, Desmond EP, et al. Genomic analysis distinguishes Mycobacterium africanum. J Clin Microbiol. 2004;42:3594-9. http://dx.doi.org/10.1128/JCM.42.8.3594-3599.2004
-
(2004)
J Clin Microbiol
, vol.42
, pp. 3594-3599
-
-
Mostowy, S.1
Onipede, A.2
Gagneux, S.3
Niemann, S.4
Kremer, K.5
Desmond, E.P.6
-
32
-
-
0018869935
-
Isolation of Mycobacterium africanum from monkeys
-
Thorel MF. Isolation of Mycobacterium africanum from monkeys. Tubercle. 1980;61:101-4. http://dx.doi.org/10.1016/00413879(80)90018-5
-
(1980)
Tubercle
, vol.61
, pp. 101-104
-
-
Thorel, M.F.1
-
33
-
-
1642353488
-
Mycobacterium tuberculosis infections in eight species at the national zoological gardens of South Africa, 1991-2001
-
Michel AL, Venter L, Espie IW, Coetzee ML. Mycobacterium tuberculosis infections in eight species at the national zoological gardens of South Africa, 1991-2001. J Zoo Wildl Med. 2003;34:364-70. http://dx.doi.org/10.1638/02-063
-
(2003)
J Zoo Wildl Med
, vol.34
, pp. 364-370
-
-
Michel, A.L.1
Venter, L.2
Espie, I.W.3
Coetzee, M.L.4
-
34
-
-
0345730810
-
Genomic interrogation of the Dassie Bacillus reveals it as a unique RD1 mutant within the Mycobacterium tuberculosis complex
-
Mostowy S, Cousins D, Behr MA. Genomic interrogation of the Dassie Bacillus reveals it as a unique RD1 mutant within the Mycobacterium tuberculosis complex. J Bacteriol. 2004;186:104-9. http://dx.doi.org/10.1128/JB.186.1.104-109.2003
-
(2004)
J Bacteriol
, vol.186
, pp. 104-109
-
-
Mostowy, S.1
Cousins, D.2
Behr, M.A.3
-
35
-
-
34249089649
-
Origins of major human infectious diseases
-
Wolfe ND, Dunavan CP, Diamond J. Origins of major human infectious diseases. Nature. 2007;447:279-83. http://dx.doi.org/10.1038/nature05775
-
(2007)
Nature
, vol.447
, pp. 279-283
-
-
Wolfe, N.D.1
Dunavan, C.P.2
Diamond, J.3
-
38
-
-
79959983171
-
Clinical characteristics of the smooth tubercle bacilli Mycobacterium canettii infection suggest the existence of an environmental reservoir
-
Koeck JL, Fabre M, Simon F, Daffe M, Garnotel E, Matan AB, et al. Clinical characteristics of the smooth tubercle bacilli Mycobacterium canettii infection suggest the existence of an environmental reservoir. Clin Microbiol Infect. 2011;17:1013-9. http://dx.doi.org/10.1111/j.1469-0691.2010.03347.x
-
(2011)
Clin Microbiol Infect
, vol.17
, pp. 1013-1019
-
-
Koeck, J.L.1
Fabre, M.2
Simon, F.3
Daffe, M.4
Garnotel, E.5
Matan, A.B.6
et al7
|