-
1
-
-
9744231340
-
Dissection of phylogenetic relationships among 19 rapidly growing Mycobacterium species by 16S rRNA, hsp65, sodA, recA, rpoB gene sequencing
-
Adekambi, T. & Drancourt, M. (2004). Dissection of phylogenetic relationships among 19 rapidly growing Mycobacterium species by 16S rRNA, hsp65, sodA, recA, rpoB gene sequencing. Int J Syst Evol Microbiol 54, 2095-2105.
-
(2004)
Int J Syst Evol Microbiol
, vol.54
, pp. 2095-2105
-
-
Adekambi, T.1
Drancourt, M.2
-
2
-
-
0029999071
-
Polymerase chain reaction for diagnostic of M. tuberculosis: Comparison of simple boiling and a conventional method for DNA extraction
-
Afghani, B. & Stutman, H. R. (1996). Polymerase chain reaction for diagnostic of M. tuberculosis: comparison of simple boiling and a conventional method for DNA extraction. Biochem Mol Med 57, 14-18.
-
(1996)
Biochem Mol Med
, vol.57
, pp. 14-18
-
-
Afghani, B.1
Stutman, H.R.2
-
3
-
-
33745256005
-
Approximate likelihood-ratio test for branches: A fast, accurate and powerful alternative
-
Anisimova, M. & Gascuel, O. (2006). Approximate likelihood-ratio test for branches: a fast, accurate and powerful alternative. Syst Biol 55, 539-552.
-
(2006)
Syst Biol
, vol.55
, pp. 539-552
-
-
Anisimova, M.1
Gascuel, O.2
-
4
-
-
21644441587
-
Do orthologous gene phylogenies really support tree-thinking?
-
Bapteste, E., Susko, E., Leigh, J., MacLeod, D., Charlebois, R. L. & Doolittle, W. F. (2005). Do orthologous gene phylogenies really support tree-thinking? BMC Evol Biol 5, 33.
-
(2005)
BMC Evol Biol
, vol.5
, pp. 33
-
-
Bapteste, E.1
Susko, E.2
Leigh, J.3
MacLeod, D.4
Charlebois, R.L.5
Doolittle, W.F.6
-
5
-
-
0033883789
-
Evaluation of recA sequences for identification of Mycobacterium species
-
Blackwood, K. S., He, C., Gunton, J., Turenne, C. Y., Wolfe, J. & Kabani, A. M. (2000). Evaluation of recA sequences for identification of Mycobacterium species. J Clin Microbiol 38, 2846-2852.
-
(2000)
J Clin Microbiol
, vol.38
, pp. 2846-2852
-
-
Blackwood, K.S.1
He, C.2
Gunton, J.3
Turenne, C.Y.4
Wolfe, J.5
Kabani, A.M.6
-
6
-
-
0034942865
-
Universal trees based on large combined protein sequence data sets
-
Brown, J. R., Douady, C. J., Italia, M. J., Marshall, W. E. & Stanhope, M. J. (2001). Universal trees based on large combined protein sequence data sets. Nat Genet 28, 281-285.
-
(2001)
Nat Genet
, vol.28
, pp. 281-285
-
-
Brown, J.R.1
Douady, C.J.2
Italia, M.J.3
Marshall, W.E.4
Stanhope, M.J.5
-
7
-
-
33749572917
-
Exploring the relationships between sequences similarity and accurate phylogenetic trees
-
Cantarel, B. L., Morrison, H. G. & Pearson, W. (2006). Exploring the relationships between sequences similarity and accurate phylogenetic trees. Mol Biol Evol 23, 2090-2100.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 2090-2100
-
-
Cantarel, B.L.1
Morrison, H.G.2
Pearson, W.3
-
8
-
-
23644445501
-
Phylogenetic analysis of Pasteuria penetrans by use of multiple genetic loci
-
Charles, L., Carbone, I., Davies, K. G., Bird, D., Burke, M., Kerry, B. R. & Opperman, C. H. (2005). Phylogenetic analysis of Pasteuria penetrans by use of multiple genetic loci. J Bacteriol 187, 5700-5708.
-
(2005)
J Bacteriol
, vol.187
, pp. 5700-5708
-
-
Charles, L.1
Carbone, I.2
Davies, K.G.3
Bird, D.4
Burke, M.5
Kerry, B.R.6
Opperman, C.H.7
-
9
-
-
33750314083
-
TreeDyn: Towards dynamic graphics and annotations for analyses of trees
-
Chevenet, F., Brun, C., Banuls, A. L., Jacq, B. & Christen, R. (2006). TreeDyn: towards dynamic graphics and annotations for analyses of trees. BMC Bioinformatics 7, 439.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 439
-
-
Chevenet, F.1
Brun, C.2
Banuls, A.L.3
Jacq, B.4
Christen, R.5
-
10
-
-
34447341925
-
SDM: A fast distance-based approach for (super) tree building in phylogenomics
-
Criscuolo, A., Berry, V., Douzery, E. J. & Gascuel, O. (2006). SDM: a fast distance-based approach for (super) tree building in phylogenomics. Syst Biol 55, 740-755.
-
(2006)
Syst Biol
, vol.55
, pp. 740-755
-
-
Criscuolo, A.1
Berry, V.2
Douzery, E.J.3
Gascuel, O.4
-
11
-
-
0035749071
-
Bacterial molecular phylogeny using supertree approach
-
Daubin, V., Gouy, M. & Perriere, G. (2001). Bacterial molecular phylogeny using supertree approach. Genome Informatics 12, 155-164.
-
(2001)
Genome Informatics
, vol.12
, pp. 155-164
-
-
Daubin, V.1
Gouy, M.2
Perriere, G.3
-
12
-
-
13244273719
-
A multigene approach to phylogenetic analysis using the genus Mycobacterium as a model
-
Devulder, G., Pérouse de Montclos, M. & Flandrois, J. P. (2005). A multigene approach to phylogenetic analysis using the genus Mycobacterium as a model. Int J Syst Evol Microbiol 55, 293-302.
-
(2005)
Int J Syst Evol Microbiol
, vol.55
, pp. 293-302
-
-
Devulder, G.1
Pérouse de Montclos, M.2
Flandrois, J.P.3
-
13
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with accuracy and high throughput
-
Edgar, R. C. (2004). MUSCLE: multiple sequence alignment with accuracy and high throughput. Nucleic Acids Res 32, 1792-1797.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
14
-
-
55849119131
-
-
Felsenstein, J, 2004, PHYLIP phylogeny inference package, version 3.6. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA
-
Felsenstein, J. (2004). PHYLIP (phylogeny inference package), version 3.6. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
-
-
-
-
15
-
-
0030464460
-
SEAVIEW and PHYLO_WIN: Two graphic tools for sequence alignment and molecular phylogeny
-
Galtier, N., Gouy, M. & Gautier, C. (1996). SEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny. Comput Appl Biosci 12, 543-548.
-
(1996)
Comput Appl Biosci
, vol.12
, pp. 543-548
-
-
Galtier, N.1
Gouy, M.2
Gautier, C.3
-
16
-
-
0030807655
-
BIONJ: An improved version of the NJ algorithm based on a simple model of sequence data
-
Gascuel, O. (1997). BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data. Mol Biol Evol 14, 685-695.
-
(1997)
Mol Biol Evol
, vol.14
, pp. 685-695
-
-
Gascuel, O.1
-
17
-
-
0242578620
-
A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
-
Guindon, S. & Gascuel, O. (2003). A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52, 696-704.
-
(2003)
Syst Biol
, vol.52
, pp. 696-704
-
-
Guindon, S.1
Gascuel, O.2
-
18
-
-
33751399556
-
Using the nucleotide substitution rate matrix to detect horizontal gene transfer
-
Hamady, M., Betterton, M. D. & Knight, R. (2006). Using the nucleotide substitution rate matrix to detect horizontal gene transfer. BMC Bioinformatics 7, 476.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 476
-
-
Hamady, M.1
Betterton, M.D.2
Knight, R.3
-
19
-
-
0022376704
-
Dating of the human-ape splitting by a molecular clock of mitochondrial DNA
-
Hasegawa, M., Kishino, H. & Yano, R. A. (1985). Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J Mol Evol 22, 160-174.
-
(1985)
J Mol Evol
, vol.22
, pp. 160-174
-
-
Hasegawa, M.1
Kishino, H.2
Yano, R.A.3
-
20
-
-
0032904917
-
Identification of mycobacterial species by comparative sequence analysis of the RNA polymerase gene (rpoB)
-
Kim, B. J., Lee, S. H., Lyu, M. A., Kim, S. J., Bai, G. H., Him, S. J., Chae, G. T., Kim, E. C., Cha, C. Y. & Kook, Y. H. (1999). Identification of mycobacterial species by comparative sequence analysis of the RNA polymerase gene (rpoB). J Clin Microbiol 37, 1714-1720.
-
(1999)
J Clin Microbiol
, vol.37
, pp. 1714-1720
-
-
Kim, B.J.1
Lee, S.H.2
Lyu, M.A.3
Kim, S.J.4
Bai, G.H.5
Him, S.J.6
Chae, G.T.7
Kim, E.C.8
Cha, C.Y.9
Kook, Y.H.10
-
21
-
-
22544440001
-
-
Kim, H., Kim, S. H., Shim, T. S., Kim, M., Bai, G. H., Park, Y. G., Lee, S. H., Chae, G. T., Cha, C. Y. & other authors (2005). Differentiation of Mycobacterium species by analysis of the heat-shock protein 65 gene (hsp65). Int J Syst Evol Microbiol 55, 1649-1656.
-
Kim, H., Kim, S. H., Shim, T. S., Kim, M., Bai, G. H., Park, Y. G., Lee, S. H., Chae, G. T., Cha, C. Y. & other authors (2005). Differentiation of Mycobacterium species by analysis of the heat-shock protein 65 gene (hsp65). Int J Syst Evol Microbiol 55, 1649-1656.
-
-
-
-
22
-
-
34547907085
-
Identification of Mycobacterium using the EF-tu encoding (tuf) gene and the tmRNA encoding (ssrA) gene
-
Mignard, S. & Flandrois, J. P. (2007). Identification of Mycobacterium using the EF-tu encoding (tuf) gene and the tmRNA encoding (ssrA) gene. J Med Microbiol 56, 1033-1041.
-
(2007)
J Med Microbiol
, vol.56
, pp. 1033-1041
-
-
Mignard, S.1
Flandrois, J.P.2
-
23
-
-
4143122089
-
Phylogenomics of Eukaryotes: Impact of missing data on large alignments
-
Philippe, H., Snell, E. A., Bapteste, E., Lopez, P., Holland, P. W. H. & Casane, D. (2004). Phylogenomics of Eukaryotes: impact of missing data on large alignments. Mol Biol Evol 21, 1740-1752.
-
(2004)
Mol Biol Evol
, vol.21
, pp. 1740-1752
-
-
Philippe, H.1
Snell, E.A.2
Bapteste, E.3
Lopez, P.4
Holland, P.W.H.5
Casane, D.6
-
24
-
-
0031060075
-
Genotypic characterization of five subspecies of Mycobacterium kansasii
-
Picardeau, M., Prod'hom, G., Raskine, L., Lepennec, M. P. & Vincent, V. (1997). Genotypic characterization of five subspecies of Mycobacterium kansasii. J Clin Microbiol 35, 25-32.
-
(1997)
J Clin Microbiol
, vol.35
, pp. 25-32
-
-
Picardeau, M.1
Prod'hom, G.2
Raskine, L.3
Lepennec, M.P.4
Vincent, V.5
-
25
-
-
0035989633
-
Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology
-
Stackebrandt, E., Frederiksen, W., Garrity, G.M., Grimont, P. A., Kämpfer, P., Maiden, M. C., Nesme, X., Rosselló-Mora, R., Swings, J. & other authors (2002). Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. Int J Syst Evol Microbiol 52, 1043-1047.
-
(2002)
Int J Syst Evol Microbiol
, vol.52
, pp. 1043-1047
-
-
Stackebrandt, E.1
Frederiksen, W.2
Garrity, G.M.3
Grimont, P.A.4
Kämpfer, P.5
Maiden, M.C.6
Nesme, X.7
Rosselló-Mora, R.8
Swings, J.9
-
26
-
-
33751258603
-
The bacterial species dilemma and the genomic-phylogenetic species concept
-
Staley, J. T. (2006). The bacterial species dilemma and the genomic-phylogenetic species concept. Phil Trans R Soc B 361, 1899-1909.
-
(2006)
Phil Trans R Soc B
, vol.361
, pp. 1899-1909
-
-
Staley, J.T.1
-
27
-
-
0037396976
-
Impact of genotypic studies on Mycobacteria taxonomy: The new Mycobacteria of the 1990s
-
Tortoli, E. (2003). Impact of genotypic studies on Mycobacteria taxonomy: the new Mycobacteria of the 1990s. Clin Microbiol Rev 16, 319-354.
-
(2003)
Clin Microbiol Rev
, vol.16
, pp. 319-354
-
-
Tortoli, E.1
-
28
-
-
33845808750
-
Analysis of bifidobacterial evolution using a multilocus approach
-
Ventura, M., Canchaya, C., Del Casale, A., Dellaglio, F., Neviani, E., Fitzgerald, G. F. & Van Sinderen, D. (2006). Analysis of bifidobacterial evolution using a multilocus approach. Int J Syst Evol Microbiol 56, 2783-2792.
-
(2006)
Int J Syst Evol Microbiol
, vol.56
, pp. 2783-2792
-
-
Ventura, M.1
Canchaya, C.2
Del Casale, A.3
Dellaglio, F.4
Neviani, E.5
Fitzgerald, G.F.6
Van Sinderen, D.7
-
29
-
-
0345328128
-
Gene sequences useful for predicting relatedness of whole genomes in bacteria
-
Zeigler, D. R. (2003). Gene sequences useful for predicting relatedness of whole genomes in bacteria. Int J Syst Evol Microbiol 53, 1893-1900.
-
(2003)
Int J Syst Evol Microbiol
, vol.53
, pp. 1893-1900
-
-
Zeigler, D.R.1
-
30
-
-
0028130261
-
The superoxide dismutase gene as a target for detection and identification of mycobacteria by PCR
-
Zolg, J. W. & Philippi-Schulz, S. (1994). The superoxide dismutase gene as a target for detection and identification of mycobacteria by PCR. J Clin Microbiol 32, 2801-2812.
-
(1994)
J Clin Microbiol
, vol.32
, pp. 2801-2812
-
-
Zolg, J.W.1
Philippi-Schulz, S.2
|