-
1
-
-
77956864543
-
Distribution of phylogenetic groups in human commensal Escherichia coli
-
Bailey J.K., Pinyon J.L., Anantham S., Hall R.M. Distribution of phylogenetic groups in human commensal Escherichia coli. J. Clin. Microbiol. 2010, 48:3455-3456.
-
(2010)
J. Clin. Microbiol.
, vol.48
, pp. 3455-3456
-
-
Bailey, J.K.1
Pinyon, J.L.2
Anantham, S.3
Hall, R.M.4
-
2
-
-
0023526239
-
Estimating the population size for capture-recapture data with unequal catchability
-
Chao A. Estimating the population size for capture-recapture data with unequal catchability. Biometrics 1987, 43:783-791.
-
(1987)
Biometrics
, vol.43
, pp. 783-791
-
-
Chao, A.1
-
3
-
-
0033775633
-
Rapid and simple determination of the Escherichia coli phylogenetic group
-
Clermont O., Bonacorsi S., Bingen E. Rapid and simple determination of the Escherichia coli phylogenetic group. Appl. Environ. Microbiol. 2000, 66:4555-4558.
-
(2000)
Appl. Environ. Microbiol.
, vol.66
, pp. 4555-4558
-
-
Clermont, O.1
Bonacorsi, S.2
Bingen, E.3
-
4
-
-
79953106430
-
Animal and human pathogenic Escherichia coli strains share common genetic backgrounds
-
Clermont O., Olier M., Hoede C., Diancourt L., Brisse S., Keroudean M., Glodt J., et al. Animal and human pathogenic Escherichia coli strains share common genetic backgrounds. Infect. Genet. Evol. 2011, 11:654-662.
-
(2011)
Infect. Genet. Evol.
, vol.11
, pp. 654-662
-
-
Clermont, O.1
Olier, M.2
Hoede, C.3
Diancourt, L.4
Brisse, S.5
Keroudean, M.6
Glodt, J.7
-
5
-
-
0035793056
-
Recombination within natural populations of pathogenic bacteria: short-term empirical estimates and long-term phylogenetic consequences
-
Feil E.J., Holmes E.C., Bessen D.E., Chan M.S., Day N.P., Enright M.C., Goldstein R., et al. Recombination within natural populations of pathogenic bacteria: short-term empirical estimates and long-term phylogenetic consequences. Proc. Natl. Acad. Sci. USA 2001, 98:182-187.
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 182-187
-
-
Feil, E.J.1
Holmes, E.C.2
Bessen, D.E.3
Chan, M.S.4
Day, N.P.5
Enright, M.C.6
Goldstein, R.7
-
6
-
-
1342304133
-
EBURST: inferring patterns of evolutionary descent among clusters of related bacterial genotypes from multilocus sequence typing data
-
Feil E.J., Li B.C., Aanensen D.M., Hanage W.P., Spratt B.G. EBURST: inferring patterns of evolutionary descent among clusters of related bacterial genotypes from multilocus sequence typing data. J. Bacteriol. 2004, 186:1518-1530.
-
(2004)
J. Bacteriol.
, vol.186
, pp. 1518-1530
-
-
Feil, E.J.1
Li, B.C.2
Aanensen, D.M.3
Hanage, W.P.4
Spratt, B.G.5
-
7
-
-
30744460678
-
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
-
Filliol I., Motiwala A.S., Cavatore M., Qi W., Hazbón M.H., Bobadilla del Valle M., Fyfe J., 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. J. Bacteriol. 2006, 188:759-772.
-
(2006)
J. Bacteriol.
, vol.188
, pp. 759-772
-
-
Filliol, I.1
Motiwala, A.S.2
Cavatore, M.3
Qi, W.4
Hazbón, M.H.5
Bobadilla del Valle, M.6
Fyfe, J.7
-
8
-
-
51649120558
-
Assigning Escherichia coli strains to phylogenetic groups: multi-locus sequence typing versus the PCR triples method
-
Gordon D.M., Clermont O., Tolley H., Denamur E. Assigning Escherichia coli strains to phylogenetic groups: multi-locus sequence typing versus the PCR triples method. Environ. Microbiol. 2008, 10:2484-2496.
-
(2008)
Environ. Microbiol.
, vol.10
, pp. 2484-2496
-
-
Gordon, D.M.1
Clermont, O.2
Tolley, H.3
Denamur, E.4
-
9
-
-
3843116530
-
Analysis of the genome structure of the nonpathogenic probiotic Escherichia coli strain Nissle 1917
-
Grozdanov L., Raasch C., Schulze J., Sonnenborn U., Gottschalk G., Hacker J., Dobrindt U. Analysis of the genome structure of the nonpathogenic probiotic Escherichia coli strain Nissle 1917. J. Bacteriol. 2004, 186:5432-5441.
-
(2004)
J. Bacteriol.
, vol.186
, pp. 5432-5441
-
-
Grozdanov, L.1
Raasch, C.2
Schulze, J.3
Sonnenborn, U.4
Gottschalk, G.5
Hacker, J.6
Dobrindt, U.7
-
10
-
-
0033664744
-
LIAN 3.0: detecting linkage disequilibrium in multilocus data. Linkage analysis
-
Haubold B., Hudson R.R. LIAN 3.0: detecting linkage disequilibrium in multilocus data. Linkage analysis. Bioinformatics 2000, 16:847-848.
-
(2000)
Bioinformatics
, vol.16
, pp. 847-848
-
-
Haubold, B.1
Hudson, R.R.2
-
11
-
-
13444272526
-
Characterization of the flexible genome complement of the commensal Escherichia coli strain A0 34/86 (O83: K24: H31)
-
Hejnova J., Dobrindt U., Nemcova R., Rusniok C., Bomba A., Frangeul L., Hacker J., et al. Characterization of the flexible genome complement of the commensal Escherichia coli strain A0 34/86 (O83: K24: H31). Microbiology 2005, 151:385-398.
-
(2005)
Microbiology
, vol.151
, pp. 385-398
-
-
Hejnova, J.1
Dobrindt, U.2
Nemcova, R.3
Rusniok, C.4
Bomba, A.5
Frangeul, L.6
Hacker, J.7
-
12
-
-
23744507367
-
Single-nucleotide polymorphism phylotyping of Escherichia coli
-
Hommais F., Pereira S., Acquaviva C., Escobar-Páramo P., Denamur E. Single-nucleotide polymorphism phylotyping of Escherichia coli. Appl. Environ. Microbiol. 2005, 71:4784-4792.
-
(2005)
Appl. Environ. Microbiol.
, vol.71
, pp. 4784-4792
-
-
Hommais, F.1
Pereira, S.2
Acquaviva, C.3
Escobar-Páramo, P.4
Denamur, E.5
-
13
-
-
0035487318
-
Counting the uncountable: statistical approaches to estimating microbial diversity
-
Hughes J.B., Hellmann J.J., Ricketts T.H., Bohannan B.J. Counting the uncountable: statistical approaches to estimating microbial diversity. Appl. Environ. Microbiol. 2001, 67:4399-4406.
-
(2001)
Appl. Environ. Microbiol.
, vol.67
, pp. 4399-4406
-
-
Hughes, J.B.1
Hellmann, J.J.2
Ricketts, T.H.3
Bohannan, B.J.4
-
14
-
-
60549112381
-
Phylogenetic and genomic diversity of human bacteremic Escherichia coli strains
-
Jaureguy F., Landraud L., Passet V., Diancourt L., Frapy E., Guigon G., Carbonnelle E., et al. Phylogenetic and genomic diversity of human bacteremic Escherichia coli strains. BMC Genomics 2008, 9:560.
-
(2008)
BMC Genomics
, vol.9
, pp. 560
-
-
Jaureguy, F.1
Landraud, L.2
Passet, V.3
Diancourt, L.4
Frapy, E.5
Guigon, G.6
Carbonnelle, E.7
-
15
-
-
0036010036
-
Extraintestinal pathogenic Escherichia coli: " the other bad E. coli"
-
Johnson J.R., Russo T.A. Extraintestinal pathogenic Escherichia coli: " the other bad E. coli" J. Lab. Clin. Med. 2002, 139:155-162.
-
(2002)
J. Lab. Clin. Med.
, vol.139
, pp. 155-162
-
-
Johnson, J.R.1
Russo, T.A.2
-
16
-
-
24144465937
-
Molecular epidemiology of extraintestinal pathogenic (uropathogenic) Escherichia coli
-
Johnson J.R., Russo T.A. Molecular epidemiology of extraintestinal pathogenic (uropathogenic) Escherichia coli. Int. J. Med. Microbiol. 2005, 295:383-404.
-
(2005)
Int. J. Med. Microbiol.
, vol.295
, pp. 383-404
-
-
Johnson, J.R.1
Russo, T.A.2
-
18
-
-
35348926463
-
Common and specific genomic sequences of avian and human extraintestinal pathogenic Escherichia coli as determined by genomic subtractive hybridization
-
Kariyawasam S., Scaccianoce J.A., Nolan L.K. Common and specific genomic sequences of avian and human extraintestinal pathogenic Escherichia coli as determined by genomic subtractive hybridization. BMC Microbiol. 2007, 7:81.
-
(2007)
BMC Microbiol.
, vol.7
, pp. 81
-
-
Kariyawasam, S.1
Scaccianoce, J.A.2
Nolan, L.K.3
-
20
-
-
42449105377
-
Variation in virulence among clades of Escherichia coli O157:H7 associated with disease outbreaks
-
Manning S.D., Motiwala A.S., Springman A.C., Qi W., Lacher D.W., Ouellette L.M., Mladonicky J.M., et al. Variation in virulence among clades of Escherichia coli O157:H7 associated with disease outbreaks. Proc. Natl. Acad. Sci. USA 2008, 105:4868-4873.
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 4868-4873
-
-
Manning, S.D.1
Motiwala, A.S.2
Springman, A.C.3
Qi, W.4
Lacher, D.W.5
Ouellette, L.M.6
Mladonicky, J.M.7
-
21
-
-
13144252236
-
Multilocus sequence typing: a portable approach to the identification of clones within populations of pathogenic microorganisms
-
Maiden M.C., Bygraves J.A., Feil E., Morelli G., Russell J.E., Urwin R., Zhang Q., et al. Multilocus sequence typing: a portable approach to the identification of clones within populations of pathogenic microorganisms. Proc. Natl. Acad. Sci. USA 1998, 95:3140-3145.
-
(1998)
Proc. Natl. Acad. Sci. USA
, vol.95
, pp. 3140-3145
-
-
Maiden, M.C.1
Bygraves, J.A.2
Feil, E.3
Morelli, G.4
Russell, J.E.5
Urwin, R.6
Zhang, Q.7
-
22
-
-
33745112085
-
Genome-wide detection and analysis of homologous recombination among sequenced strains of Escherichia coli
-
Mau B., Glasner J.D., Darling A.E., Perna N.T. Genome-wide detection and analysis of homologous recombination among sequenced strains of Escherichia coli. Genome Biol. 2006, 7:R4.
-
(2006)
Genome Biol.
, vol.7
-
-
Mau, B.1
Glasner, J.D.2
Darling, A.E.3
Perna, N.T.4
-
23
-
-
0027287389
-
How clonal are bacteria?
-
Maynard Smith J., Smith N.H., O'Rourke M., Spratt B.G. How clonal are bacteria?. Proc. Natl. Acad. Sci. USA 1993, 90:4384-4388.
-
(1993)
Proc. Natl. Acad. Sci. USA
, vol.90
, pp. 4384-4388
-
-
Maynard Smith, J.1
Smith, N.H.2
O'Rourke, M.3
Spratt, B.G.4
-
24
-
-
35348853833
-
Extraintestinal pathogenic Escherichia coli strains of avian and human origin: link between phylogenetic relationships and common virulence patterns
-
Moulin-Schouleur M., Répérant M., Laurent S., Brée A., Mignon-Grasteau S., Germon P., Rasschaert D., Schouler C. Extraintestinal pathogenic Escherichia coli strains of avian and human origin: link between phylogenetic relationships and common virulence patterns. J. Clin. Microbiol. 2007, 45:3366-3376.
-
(2007)
J. Clin. Microbiol.
, vol.45
, pp. 3366-3376
-
-
Moulin-Schouleur, M.1
Répérant, M.2
Laurent, S.3
Brée, A.4
Mignon-Grasteau, S.5
Germon, P.6
Rasschaert, D.7
Schouler, C.8
-
25
-
-
0343696952
-
Evidence for clonal population structure in Escherichia coli
-
Ochman H., Selander R.K. Evidence for clonal population structure in Escherichia coli. Proc. Natl. Acad. Sci. USA 1984, 81:198-201.
-
(1984)
Proc. Natl. Acad. Sci. USA
, vol.81
, pp. 198-201
-
-
Ochman, H.1
Selander, R.K.2
-
26
-
-
77954879314
-
Extended-spectrum [beta]-lactamase producing Escherichia coli: changing epidemiology and clinical impact
-
Oteo J., Pérez-Vázquez M., Campos J. Extended-spectrum [beta]-lactamase producing Escherichia coli: changing epidemiology and clinical impact. Curr. Opin. Infect. Dis. 2010, 23:320-326.
-
(2010)
Curr. Opin. Infect. Dis.
, vol.23
, pp. 320-326
-
-
Oteo, J.1
Pérez-Vázquez, M.2
Campos, J.3
-
27
-
-
33344458092
-
Population genetics of microbial pathogens estimated from multilocus sequence typing (MLST) data
-
Pérez-Losada M., Browne E.B., Madsen A., Wirth T., Viscidi R.P., Crandall K.A. Population genetics of microbial pathogens estimated from multilocus sequence typing (MLST) data. Infect. Genet. Evol. 2006, 6:97-112.
-
(2006)
Infect. Genet. Evol.
, vol.6
, pp. 97-112
-
-
Pérez-Losada, M.1
Browne, E.B.2
Madsen, A.3
Wirth, T.4
Viscidi, R.P.5
Crandall, K.A.6
-
28
-
-
0032965099
-
The link between phylogeny and virulence in Escherichia coli extraintestinal infection
-
Picard B., García J.S., Gouriou S., Duriez P., Brahimi N., Bingen E., Elion J., Denamur E. The link between phylogeny and virulence in Escherichia coli extraintestinal infection. Infect. Immun. 1999, 67:546-553.
-
(1999)
Infect. Immun.
, vol.67
, pp. 546-553
-
-
Picard, B.1
García, J.S.2
Gouriou, S.3
Duriez, P.4
Brahimi, N.5
Bingen, E.6
Elion, J.7
Denamur, E.8
-
29
-
-
53849104729
-
The pangenome structure of Escherichia coli: comparative genomic analysis of E. coli commensal and pathogenic isolates
-
Rasko D.A., Rosovitz M.J., Myers G.S., Mongodin E.F., Fricke W.F., Gajer P., Crabtree J., et al. The pangenome structure of Escherichia coli: comparative genomic analysis of E. coli commensal and pathogenic isolates. J. Bacteriol. 2008, 190:6881-6893.
-
(2008)
J. Bacteriol.
, vol.190
, pp. 6881-6893
-
-
Rasko, D.A.1
Rosovitz, M.J.2
Myers, G.S.3
Mongodin, E.F.4
Fricke, W.F.5
Gajer, P.6
Crabtree, J.7
-
30
-
-
78650907949
-
Genotyping of Enterococcus faecalis and Enterococcus faecium isolates by use of a set of eight single nucleotide polymorphisms
-
Rathnayake I.U., Hargreaves M., Huygens F. Genotyping of Enterococcus faecalis and Enterococcus faecium isolates by use of a set of eight single nucleotide polymorphisms. J. Clin. Microbiol. 2011, 49:367-372.
-
(2011)
J. Clin. Microbiol.
, vol.49
, pp. 367-372
-
-
Rathnayake, I.U.1
Hargreaves, M.2
Huygens, F.3
-
31
-
-
0034612502
-
Parallel evolution of virulence in pathogenic Escherichia coli
-
Reid S.D., Herbelin C.J., Bumbaugh A.C., Selander R.K., Whittam T.S. Parallel evolution of virulence in pathogenic Escherichia coli. Nature 2000, 406:64-67.
-
(2000)
Nature
, vol.406
, pp. 64-67
-
-
Reid, S.D.1
Herbelin, C.J.2
Bumbaugh, A.C.3
Selander, R.K.4
Whittam, T.S.5
-
32
-
-
1542426071
-
Identification and interrogation of highly informative single nucleotide polymorphism sets defined by bacterial multilocus sequence typing databases
-
Robertson G.A., Thiruvenkataswamy V., Shilling H., Price E.P., Huygens F., Henskens F.A., Giffard P.M. Identification and interrogation of highly informative single nucleotide polymorphism sets defined by bacterial multilocus sequence typing databases. J. Med. Microbiol. 2004, 53:35-45.
-
(2004)
J. Med. Microbiol.
, vol.53
, pp. 35-45
-
-
Robertson, G.A.1
Thiruvenkataswamy, V.2
Shilling, H.3
Price, E.P.4
Huygens, F.5
Henskens, F.A.6
Giffard, P.M.7
-
33
-
-
78650339210
-
Escherichia coli O25b-ST131: a pandemic, multiresistant, community-associated strain
-
Rogers B.A., Sidjabat H.E., Paterson D.L. Escherichia coli O25b-ST131: a pandemic, multiresistant, community-associated strain. J. Antimicrob. Chemother. 2011, 66:1-14.
-
(2011)
J. Antimicrob. Chemother.
, vol.66
, pp. 1-14
-
-
Rogers, B.A.1
Sidjabat, H.E.2
Paterson, D.L.3
-
34
-
-
72949107142
-
Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities
-
Schloss P.D., Westcott S.L., Ryabin T., Hall J.R., Hartmann M., Hollister E.B., Lesniewski R.A., et al. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl. Environ. Microbiol. 2009, 75:7537-7541.
-
(2009)
Appl. Environ. Microbiol.
, vol.75
, pp. 7537-7541
-
-
Schloss, P.D.1
Westcott, S.L.2
Ryabin, T.3
Hall, J.R.4
Hartmann, M.5
Hollister, E.B.6
Lesniewski, R.A.7
-
35
-
-
0001292973
-
Genetic structure and variation in natural populations of Escherichia coli
-
American Society for Microbiology, Washington, DC, F.C. Neidhardt, J.L. Ingraham, K.B. Low, B. Magasanik, M. Schaechter, H.E. Umbarger (Eds.)
-
Selander R.K., Caugant D.A., Whittam T.S. Genetic structure and variation in natural populations of Escherichia coli. Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology 1987, 1625-1648. American Society for Microbiology, Washington, DC. F.C. Neidhardt, J.L. Ingraham, K.B. Low, B. Magasanik, M. Schaechter, H.E. Umbarger (Eds.).
-
(1987)
Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology
, pp. 1625-1648
-
-
Selander, R.K.1
Caugant, D.A.2
Whittam, T.S.3
-
36
-
-
77954259631
-
Highly discriminatory single-nucleotide polymorphism interrogation of Escherichia coli by use of allele-specific real-time PCR and eBURST analysis
-
Sheludchenko M.S., Huygens F., Hargreaves M.H. Highly discriminatory single-nucleotide polymorphism interrogation of Escherichia coli by use of allele-specific real-time PCR and eBURST analysis. Appl. Environ. Microbiol. 2010, 76:4337-4345.
-
(2010)
Appl. Environ. Microbiol.
, vol.76
, pp. 4337-4345
-
-
Sheludchenko, M.S.1
Huygens, F.2
Hargreaves, M.H.3
-
37
-
-
77954733185
-
A multiplex single nucleotide polymorphism typing assay for detecting mutations that result in decreased fluoroquinolone susceptibility in Salmonella enterica serovars Typhi and Paratyphi A
-
Song Y., Roumagnac P., Weill F.X., Wain J., Dolecek C., Mazzoni C.J., Holt K.E., Achtman M. A multiplex single nucleotide polymorphism typing assay for detecting mutations that result in decreased fluoroquinolone susceptibility in Salmonella enterica serovars Typhi and Paratyphi A. J. Antimicrob. Chemother. 2010, 65:1631-1641.
-
(2010)
J. Antimicrob. Chemother.
, vol.65
, pp. 1631-1641
-
-
Song, Y.1
Roumagnac, P.2
Weill, F.X.3
Wain, J.4
Dolecek, C.5
Mazzoni, C.J.6
Holt, K.E.7
Achtman, M.8
-
38
-
-
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, 24:1596-1599.
-
(2007)
Mol. Biol. Evol.
, vol.24
, pp. 1596-1599
-
-
Tamura, K.1
Dudley, J.2
Nei, M.3
Kumar, S.4
-
39
-
-
76949094947
-
The population genetics of commensal Escherichia coli
-
Tenaillon O., Skurnik D., Picard B., Denamur E. The population genetics of commensal Escherichia coli. Nat. Rev. Microbiol. 2010, 8:207-217.
-
(2010)
Nat. Rev. Microbiol.
, vol.8
, pp. 207-217
-
-
Tenaillon, O.1
Skurnik, D.2
Picard, B.3
Denamur, E.4
-
40
-
-
59249089471
-
Organised genome dynamics in the Escherichia coli species results in highly diverse adaptive paths
-
Touchon M., Hoede C., Tenaillon O., Barbe V., Baeriswyl S., Bidet P., Bingen E., et al. Organised genome dynamics in the Escherichia coli species results in highly diverse adaptive paths. PloS Genet. 2009, 5:e1000344.
-
(2009)
PloS Genet.
, vol.5
-
-
Touchon, M.1
Hoede, C.2
Tenaillon, O.3
Barbe, V.4
Baeriswyl, S.5
Bidet, P.6
Bingen, E.7
-
41
-
-
77951629208
-
A virulent parent with probiotic progeny: comparative genomics of Escherichia coli strains CFT073, Nissle 1917 and ABU 83972
-
Vejborg R.M., Friis C., Hancock V., Schembri M.A., Klemm P. A virulent parent with probiotic progeny: comparative genomics of Escherichia coli strains CFT073, Nissle 1917 and ABU 83972. Mol. Genet. Genomics 2010, 283:469-484.
-
(2010)
Mol. Genet. Genomics
, vol.283
, pp. 469-484
-
-
Vejborg, R.M.1
Friis, C.2
Hancock, V.3
Schembri, M.A.4
Klemm, P.5
-
42
-
-
33745282930
-
Sex and virulence in Escherichia coli: an evolutionary perspective
-
Wirth T., Falush D., Lan R., Colles F., Mensa P., Wieler L.H., Karch H., et al. Sex and virulence in Escherichia coli: an evolutionary perspective. Mol. Microbiol. 2006, 60:1136-1151.
-
(2006)
Mol. Microbiol.
, vol.60
, pp. 1136-1151
-
-
Wirth, T.1
Falush, D.2
Lan, R.3
Colles, F.4
Mensa, P.5
Wieler, L.H.6
Karch, H.7
|