E. coli as an All-Rounder: The Thin Line Between Commensalism and Pathogenicity

RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models

Stamatakis, A. (2006) · Bioinformatics · doi:10.1093/bioinformatics/btl446 · Cited by 15,582

Construction of Escherichia coli K‐12 in‐frame, single‐gene knockout mutants: the Keio collection

Baba, T., Ara, T., Hasegawa, M., Takai, Y., Okumura, Y., Baba, M., Datsenko, K. A., Tomita, M., Wanner, B. L., & Mori, H. (2006) · Molecular Systems Biology · doi:10.1038/msb4100050 · Cited by 7,858

Pathogenic Escherichia coli

Kaper, J. B., Nataro, J. P., & Mobley, H. L. T. (2004) · Nature Reviews Microbiology · doi:10.1038/nrmicro818 · Cited by 5,583

Versatile and open software for comparing large genomes

Kurtz, S., Phillippy, A., Delcher, A. L., Smoot, M., Shumway, M., Antonescu, C., & Salzberg, S. L. (2004) · Genome Biology · doi:10.1186/gb-2004-5-2-r12 · Cited by 5,254

Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae : Implications for the microbial “pan-genome”

Tettelin, H., Masignani, V., Cieslewicz, M. J., Donati, C., Medini, D., Ward, N. L., Angiuoli, S. V., Crabtree, J., Jones, A. L., Durkin, A. S., et al. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0506758102 · Cited by 2,631

Genome sequence of enterohaemorrhagic Escherichia coli O157:H7

Perna, N. T., Plunkett, G., Burland, V., Mau, B., Glasner, J. D., Rose, D. J., Mayhew, G. F., Evans, P. S., Gregor, J., Kirkpatrick, H. A., et al. (2001) · Nature · doi:10.1038/35054089 · Cited by 2,055

Sex and virulence in Escherichia coli: an evolutionary perspective

Wirth, T., Falush, D., Lan, R., Colles, F., Mensa, P., Wieler, L. H., Karch, H., Reeves, P. R., Maiden, M. C. J., Ochman, H., et al. (2006) · Molecular Microbiology · doi:10.1111/j.1365-2958.2006.05172.x · Cited by 2,025

Dendroscope 3: An Interactive Tool for Rooted Phylogenetic Trees and Networks

Huson, D. H., & Scornavacca, C. (2012) · Systematic Biology · doi:10.1093/sysbio/sys062 · Cited by 1,661

The population genetics of commensal Escherichia coli

Tenaillon, O., Skurnik, D., Picard, B., & Denamur, E. (2010) · Nature Reviews Microbiology · doi:10.1038/nrmicro2298 · Cited by 1,533

Extensive mosaic structure revealed by the complete genome sequence of uropathogenic Escherichia coli

Welch, R. A., Burland, V., Plunkett, G., Redford, P., Roesch, P., Rasko, D., Buckles, E. L., Liou, S.-R., Boutin, A., Hackett, J., et al. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.252529799 · Cited by 1,531

The microbial pan-genome

Medini, D., Donati, C., Tettelin, H., Masignani, V., & Rappuoli, R. (2005) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2005.09.006 · Cited by 1,299

Complete Genome Sequence of Enterohemorrhagic Eschelichia coli O157:H7 and Genomic Comparison with a Laboratory Strain K-12

Hayashi, T. (2001) · DNA Research · doi:10.1093/dnares/8.1.11 · Cited by 1,273

Molecular mechanisms of Escherichia coli pathogenicity

Croxen, M. A., & Finlay, B. B. (2010) · Nature Reviews Microbiology · doi:10.1038/nrmicro2265 · Cited by 1,218

Escherichia coli Induces DNA Double-Strand Breaks in Eukaryotic Cells

Nougayrède, J.-P., Homburg, S., Taieb, F., Boury, M., Brzuszkiewicz, E., Gottschalk, G., Buchrieser, C., Hacker, J., Dobrindt, U., & Oswald, E. (2006) · Science · doi:10.1126/science.1127059 · Cited by 1,188

Genomic Islands in Pathogenic and Environmental Microorganisms

Dobrindt, U., Hochhut, B., Hentschel, U., & Hacker, J. (2004) · Nature Reviews Microbiology · doi:10.1038/nrmicro884 · Cited by 1,188

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., Bonacorsi, S., Bouchier, C., Bouvet, O., et al. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000344 · Cited by 1,181

Comparative genomics: the bacterial pan-genome

Tettelin, H., Riley, D., Cattuto, C., & Medini, D. (2008) · Current Opinion in Microbiology · doi:10.1016/j.mib.2008.09.006 · Cited by 1,120

Genomic islands: tools of bacterial horizontal gene transfer and evolution

Juhas, M., van der Meer, J. R., Gaillard, M., Harding, R. M., Hood, D. W., & Crook, D. W. (2009) · FEMS Microbiology Reviews · doi:10.1111/j.1574-6976.2008.00136.x · Cited by 969

Fresh fruit and vegetables as vehicles for the transmission of human pathogens

Berger, C. N., Sodha, S. V., Shaw, R. K., Griffin, P. M., Pink, D., Hand, P., & Frankel, G. (2010) · Environmental Microbiology · doi:10.1111/j.1462-2920.2010.02297.x · Cited by 889

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. A., Mongodin, E. F., Fricke, W. F., Gajer, P., Crabtree, J., Sebaihia, M., Thomson, N. R., Chaudhuri, R., et al. (2008) · Journal of Bacteriology · doi:10.1128/jb.00619-08 · Cited by 879

Origins of the E. coli Strain Causing an Outbreak of Hemolytic–Uremic Syndrome in Germany

Rasko, D. A., Webster, D. R., Sahl, J. W., Bashir, A., Boisen, N., Scheutz, F., Paxinos, E. E., Sebra, R., Chin, C.-S., Iliopoulos, D., et al. (2011) · New England Journal of Medicine · doi:10.1056/nejmoa1106920 · Cited by 823

Standard reference strains of Escherichia coli from natural populations

Ochman, H., & Selander, R. K. (1984) · Journal of Bacteriology · doi:10.1128/jb.157.2.690-693.1984 · Cited by 807

Prospective Genomic Characterization of the German Enterohemorrhagic Escherichia coli O104:H4 Outbreak by Rapid Next Generation Sequencing Technology

Mellmann, A., Harmsen, D., Cummings, C. A., Zentz, E. B., Leopold, S. R., Rico, A., Prior, K., Szczepanowski, R., Ji, Y., Zhang, W., et al. (2011) · PLoS ONE · doi:10.1371/journal.pone.0022751 · Cited by 768

Origins of bacterial diversity through horizontal genetic transfer and adaptation to new ecological niches

Wiedenbeck, J., & Cohan, F. M. (2011) · FEMS Microbiology Reviews · doi:10.1111/j.1574-6976.2011.00292.x · Cited by 663

Identification of genes subject to positive selection in uropathogenic strains of Escherichia coli : A comparative genomics approach

Chen, S. L., Hung, C.-S., Xu, J., Reigstad, C. S., Magrini, V., Sabo, A., Blasiar, D., Bieri, T., Meyer, R. R., Ozersky, P., et al. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0600938103 · Cited by 550

Comparison of 61 Sequenced Escherichia coli Genomes

Lukjancenko, O., Wassenaar, T. M., & Ussery, D. W. (2010) · Microbial Ecology · doi:10.1007/s00248-010-9717-3 · Cited by 532

Parallel evolution of virulence in pathogenic Escherichia coli

Reid, S. D., Herbelin, C. J., Bumbaugh, A. C., Selander, R. K., & Whittam, T. S. (2000) · Nature · doi:10.1038/35017546 · Cited by 507

Probiotic Escherichia coli Nissle 1917 inhibits leaky gut by enhancing mucosal integrity

Ukena, S. N., Singh, A., Dringenberg, U., Engelhardt, R., Seidler, U., Hansen, W., Bleich, A., Bruder, D., Franzke, A., Rogler, G., et al. (2007) · PLoS ONE · doi:10.1371/journal.pone.0001308 · Cited by 482

Mugsy: Fast multiple alignment of closely related whole genomes

Angiuoli, S. V., & Salzberg, S. L. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btq665 · Cited by 444

Structural basis of tropism of Escherichia coli to the bladder during urinary tract infection

Hung, C., Bouckaert, J., Hung, D., Pinkner, J., Widberg, C., DeFusco, A., Auguste, C. G., Strouse, R., Langermann, S., Waksman, G., et al. (2002) · Molecular Microbiology · doi:10.1046/j.1365-2958.2002.02915.x · Cited by 414

Open-Source Genomic Analysis of Shiga-Toxin–Producing E. coli O104:H4

Rohde, H., Qin, J., Cui, Y., Li, D., Loman, N. J., Hentschke, M., Chen, W., Pu, F., Peng, Y., Li, J., et al. (2011) · New England Journal of Medicine · doi:10.1056/nejmoa1107643 · Cited by 412

Expression of flagella is coincident with uropathogenic Escherichia coli ascension to the upper urinary tract

Lane, M. C., Alteri, C. J., Smith, S. N., & Mobley, H. L. T. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0607898104 · Cited by 406

The distribution and genetic structure of Escherichia coli in Australian vertebrates: host and geographic effects

Gordon, D. M., & Cowling, A. (2003) · Microbiology · doi:10.1099/mic.0.26486-0 · Cited by 383

Comparison of Carbon Nutrition for Pathogenic and Commensal Escherichia coli Strains in the Mouse Intestine

Fabich, A. J., Jones, S. A., Chowdhury, F. Z., Cernosek, A., Anderson, A., Smalley, D., McHargue, J. W., Hightower, G. A., Smith, J. T., Autieri, S. M., et al. (2008) · Infection and Immunity · doi:10.1128/iai.01386-07 · Cited by 380

Clonal relationships among Escherichia coli strains that cause hemorrhagic colitis and infantile diarrhea

Whittam, T. S., Wolfe, M. L., Wachsmuth, I. K., Orskov, F., Orskov, I., & Wilson, R. A. (1993) · Infection and Immunity · doi:10.1128/iai.61.5.1619-1629.1993 · Cited by 370

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. (2004) · Journal of Bacteriology · doi:10.1128/jb.186.16.5432-5441.2004 · Cited by 368

The Genome Sequence of Avian Pathogenic Escherichia coli Strain O1:K1:H7 Shares Strong Similarities with Human Extraintestinal Pathogenic E. coli Genomes

Johnson, T. J., Kariyawasam, S., Wannemuehler, Y., Mangiamele, P., Johnson, S. J., Doetkott, C., Skyberg, J. A., Lynne, A. M., Johnson, J. R., & Nolan, L. K. (2007) · Journal of Bacteriology · doi:10.1128/jb.01726-06 · Cited by 367

Biodegradation of Aromatic Compounds by Escherichia coli

Dı́az, E., Ferrández, A., Prieto, M. A., & Garcı́a, J. L. (2001) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.65.4.523-569.2001 · Cited by 364

Microbiology in the post-genomic era

Medini, D., Serruto, D., Parkhill, J., Relman, D. A., Donati, C., Moxon, R., Falkow, S., & Rappuoli, R. (2008) · Nature Reviews Microbiology · doi:10.1038/nrmicro1901 · Cited by 358

Comparative genomics reveal the mechanism of the parallel evolution of O157 and non-O157 enterohemorrhagic Escherichia coli

Ogura, Y., Ooka, T., Iguchi, A., Toh, H., Asadulghani, M., Oshima, K., Kodama, T., Abe, H., Nakayama, K., Kurokawa, K., et al. (2009) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0903585106 · Cited by 358

A Specific Genetic Background Is Required for Acquisition and Expression of Virulence Factors in Escherichia coli

Escobar-Páramo, P., Clermont, O., Blanc-Potard, A.-B., Bui, H., Le Bouguénec, C., & Denamur, E. (2004) · Molecular Biology and Evolution · doi:10.1093/molbev/msh118 · Cited by 356

How to become a uropathogen: Comparative genomic analysis of extraintestinal pathogenic Escherichia coli strains

Brzuszkiewicz, E., Brüggemann, H., Liesegang, H., Emmerth, M., Ölschläger, T., Nagy, G., Albermann, K., Wagner, C., Buchrieser, C., Emődy, L., et al. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0603038103 · Cited by 351

Complete Genome Sequence and Comparative Genome Analysis of Enteropathogenic Escherichia coli O127:H6 Strain E2348/69

Iguchi, A., Thomson, N. R., Ogura, Y., Saunders, D., Ooka, T., Henderson, I. R., Harris, D., Asadulghani, M., Kurokawa, K., Dean, P., et al. (2009) · Journal of Bacteriology · doi:10.1128/jb.01238-08 · Cited by 334

Genome sequencing of environmental Escherichia coli expands understanding of the ecology and speciation of the model bacterial species

Luo, C., Walk, S. T., Gordon, D. M., Feldgarden, M., Tiedje, J. M., & Konstantinidis, K. T. (2011) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1015622108 · Cited by 322

Genetic Structure and Distribution of the Colibactin Genomic Island among Members of the Family Enterobacteriaceae

Putze, J., Hennequin, C., Nougayrède, J.-P., Zhang, W., Homburg, S., Karch, H., Bringer, M.-A., Fayolle, C., Carniel, E., Rabsch, W., et al. (2009) · Infection and Immunity · doi:10.1128/iai.00522-09 · Cited by 322

What defines extraintestinal pathogenic Escherichia coli?

Köhler, C.-D., & Dobrindt, U. (2011) · International Journal of Medical Microbiology · doi:10.1016/j.ijmm.2011.09.006 · Cited by 318

Induction of Human β-Defensin 2 by the Probiotic Escherichia coli Nissle 1917 Is Mediated through Flagellin

Schlee, M., Wehkamp, J., Altenhoefer, A., Oelschlaeger, T. A., Stange, E. F., & Fellermann, K. (2007) · Infection and Immunity · doi:10.1128/iai.01563-06 · Cited by 315

Clinical use of E. coli Nissle 1917 in inflammatory bowel disease

Schultz, M. (2008) · Inflammatory Bowel Diseases · doi:10.1002/ibd.20377 · Cited by 310

Genome sequence analyses of two isolates from the recent Escherichia coli outbreak in Germany reveal the emergence of a new pathotype: Entero-Aggregative-Haemorrhagic Escherichia coli (EAHEC)

Brzuszkiewicz, E., Thürmer, A., Schuldes, J., Leimbach, A., Liesegang, H., Meyer, F.-D., Boelter, J., Petersen, H., Gottschalk, G., & Daniel, R. (2011) · Archives of Microbiology · doi:10.1007/s00203-011-0725-6 · Cited by 289

GENETIC DIVERSITY AND TEMPORAL VARIATION IN THE E. COLI POPULATION OF A HUMAN HOST

Caugant, D. A., Levin, B. R., & Selander, R. K. (1981) · Genetics · doi:10.1093/genetics/98.3.467 · Cited by 282

Cryptic Lineages of the Genus Escherichia

Walk, S. T., Alm, E. W., Gordon, D. M., Ram, J. L., Toranzos, G. A., Tiedje, J. M., & Whittam, T. S. (2009) · Applied and Environmental Microbiology · doi:10.1128/aem.01262-09 · Cited by 273

Analysis of Genome Plasticity in Pathogenic and Commensal Escherichia coli Isolates by Use of DNA Arrays

Dobrindt, U., Agerer, F., Michaelis, K., Janka, A., Buchrieser, C., Samuelson, M., Svanborg, C., Gottschalk, G., Karch, H., & Hacker, J. (2003) · Journal of Bacteriology · doi:10.1128/jb.185.6.1831-1840.2003 · Cited by 262

Extraintestinal Virulence Is a Coincidental By-Product of Commensalism in B2 Phylogenetic Group Escherichia coli Strains

Le Gall, T., Clermont, O., Gouriou, S., Picard, B., Nassif, X., Denamur, E., & Tenaillon, O. (2007) · Molecular Biology and Evolution · doi:10.1093/molbev/msm172 · Cited by 262

Identification of protective and broadly conserved vaccine antigens from the genome of extraintestinal pathogenic Escherichia coli

Moriel, D. G., Bertoldi, I., Spagnuolo, A., Marchi, S., Rosini, R., Nesta, B., Pastorello, I., Corea, V. A. M., Torricelli, G., Cartocci, E., et al. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0915077107 · Cited by 261

Cell size and nucleoid organization of engineered Escherichia coli cells with a reduced genome

Hashimoto, M., Ichimura, T., Mizoguchi, H., Tanaka, K., Fujimitsu, K., Keyamura, K., Ote, T., Yamakawa, T., Yamazaki, Y., Mori, H., et al. (2005) · Molecular Microbiology · doi:10.1111/j.1365-2958.2004.04386.x · Cited by 261

α-Haemolysin of uropathogenic E. coli induces Ca2+ oscillations in renal epithelial cells

Uhlén, P., Laestadius, Å., Jahnukainen, T., Söderblom, T., Bäckhed, F., Celsi, G., Brismar, H., Normark, S., Aperia, A., & Richter-Dahlfors, A. (2000) · Nature · doi:10.1038/35015091 · Cited by 258

Biology's next revolution

Goldenfeld, N. D., & Woese, C. R. (2007) · RePEc: Research Papers in Economics · Cited by 253

Role of Motility in the Colonization of Uropathogenic Escherichia coli in the Urinary Tract

Lane, M. C., Lockatell, V., Monterosso, G., Lamphier, D., Weinert, J., Hebel, J. R., Johnson, D. E., & Mobley, H. L. T. (2005) · Infection and Immunity · doi:10.1128/iai.73.11.7644-7656.2005 · Cited by 246

Large-Scale Population Structure of Human Commensal Escherichia coli Isolates

Escobar-Páramo, P., Grenet, K., Le Menac'h, A., Rode, L., Salgado, E., Amorin, C., Gouriou, S., Picard, B., Rahimy, M. C., Andremont, A., et al. (2004) · Applied and Environmental Microbiology · doi:10.1128/aem.70.9.5698-5700.2004 · Cited by 243

The enemy within us: lessons from the 2011 European Escherichia coli O104:H4 outbreak

Karch, H., Denamur, E., Dobrindt, U., Finlay, B. B., Hengge, R., Johannes, L., Ron, E. Z., Tønjum, T., Sansonetti, P. J., & Vicente, M. (2012) · EMBO Molecular Medicine · doi:10.1002/emmm.201201662 · Cited by 242

Identification of forces shaping the commensal Escherichia coli genetic structure by comparing animal and human isolates

Escobar‐Páramo, P., Le Menac’h, A., Le Gall, T., Amorin, C., Gouriou, S., Picard, B., Skurnik, D., & Denamur, E. (2006) · Environmental Microbiology · doi:10.1111/j.1462-2920.2006.01077.x · Cited by 236

Biology's next revolution

Goldenfeld, N., & Woese, C. (2007) · Nature · doi:10.1038/445369a · Cited by 235

The probiotic Escherichia coli strain Nissle 1917 interferes with invasion of human intestinal epithelial cells by different enteroinvasive bacterial pathogens

Altenhoefer, A., Oswald, S., Sonnenborn, U., Enders, C., Schulze, J., Hacker, J., & Oelschlaeger, T. A. (2004) · FEMS Immunology & Medical Microbiology · doi:10.1016/s0928-8244(03)00368-7 · Cited by 221

Chromosomal Regions Specific to Pathogenic Isolates of Escherichia coli Have a Phylogenetically Clustered Distribution

Boyd, E. F., & Hartl, D. L. (1998) · Journal of Bacteriology · doi:10.1128/jb.180.5.1159-1165.1998 · Cited by 206

The evolution of the Escherichia coli phylogeny

Chaudhuri, R. R., & Henderson, I. R. (2012) · Infection, Genetics and Evolution · doi:10.1016/j.meegid.2012.01.005 · Cited by 204

Molecular evolution of the Escherichia coli chromosome. II. Clonal segments.

Milkman, R., & Stoltzfus, A. (1988) · Genetics · doi:10.1093/genetics/120.2.359 · Cited by 197

Genome sequence of adherent-invasive Escherichia coli and comparative genomic analysis with other E. coli pathotypes

Nash, J. H., Villegas, A., Kropinski, A. M., Aguilar-Valenzuela, R., Konczy, P., Mascarenhas, M., Ziebell, K., Torres, A. G., Karmali, M. A., & Coombes, B. K. (2010) · BMC Genomics · doi:10.1186/1471-2164-11-667 · Cited by 194

Molecular Epidemiology and Phylogenetic Distribution of the Escherichia coli pks Genomic Island

Johnson, J. R., Johnston, B., Kuskowski, M. A., Nougayrede, J.-P., & Oswald, E. (2008) · Journal of Clinical Microbiology · doi:10.1128/jcm.00949-08 · Cited by 194

Escherichia coli Strains Belonging to Phylogenetic Group B2 Have Superior Capacity to Persist in the Intestinal Microflora of Infants

Nowrouzian, F. L., Wold, A. E., & Adlerberth, I. (2005) · The Journal of Infectious Diseases · doi:10.1086/427996 · Cited by 189

Complete Genome Sequence and Comparative Metabolic Profiling of the Prototypical Enteroaggregative Escherichia coli Strain 042

Chaudhuri, R. R., Sebaihia, M., Hobman, J. L., Webber, M. A., Leyton, D. L., Goldberg, M. D., Cunningham, A. F., Scott-Tucker, A., Ferguson, P. R., Thomas, C. M., et al. (2010) · PLoS ONE · doi:10.1371/journal.pone.0008801 · Cited by 187

OGEE: an online gene essentiality database

Chen, W.-H., Minguez, P., Lercher, M. J., & Bork, P. (2012) · Nucleic Acids Research · doi:10.1093/nar/gkr986 · Cited by 187

A Commensal Gone Bad: Complete Genome Sequence of the Prototypical Enterotoxigenic Escherichia coli Strain H10407

Crossman, L. C., Chaudhuri, R. R., Beatson, S. A., Wells, T. J., Desvaux, M., Cunningham, A. F., Petty, N. K., Mahon, V., Brinkley, C., Hobman, J. L., et al. (2010) · Journal of Bacteriology · doi:10.1128/jb.00710-10 · Cited by 185

PERSISTENCE OF INDIVIDUAL STRAINS OF ESCHERICHIA COLI IN THE INTESTINAL TRACT OF MAN

Sears, H. J., Brownlee, I., & Uchiyama, J. K. (1950) · Journal of Bacteriology · doi:10.1128/jb.59.2.293-301.1950 · Cited by 181

Complete Genome Sequence of Crohn's Disease-Associated Adherent-Invasive E. coli Strain LF82

Miquel, S., Peyretaillade, E., Claret, L., de Vallée, A., Dossat, C., Vacherie, B., Zineb, E. H., Segurens, B., Barbe, V., Sauvanet, P., et al. (2010) · PLoS ONE · doi:10.1371/journal.pone.0012714 · Cited by 181

A Single Nucleotide Exchange in the wzy Gene Is Responsible for the Semirough O6 Lipopolysaccharide Phenotype and Serum Sensitivity of Escherichia coli Strain Nissle 1917

Grozdanov, L., Zähringer, U., Blum-Oehler, G., Brade, L., Henne, A., Knirel, Y. A., Schombel, U., Schulze, J., Sonnenborn, U., Gottschalk, G., et al. (2002) · Journal of Bacteriology · doi:10.1128/jb.184.21.5912-5925.2002 · Cited by 180

(Patho-)Genomics of Escherichia coli

Dobrindt, U. (2005) · International Journal of Medical Microbiology · doi:10.1016/j.ijmm.2005.07.009 · Cited by 179

Escherichia coli in Infants' Intestinal Microflora: Colonization Rate, Strain Turnover, and Virulence Gene Carriage

Nowrouzian, F., Hesselmar, B., Saalman, R., Strannegård, I.-L., Åberg, N., Wold, A. E., & Adlerberth, I. (2003) · Pediatric Research · doi:10.1203/01.pdr.0000069843.20655.ee · Cited by 176

Enhanced persistence in the colonic microbiota of Escherichia coli strains belonging to phylogenetic group B2: role of virulence factors and adherence to colonic cells

Nowrouzian, F. L., Adlerberth, I., & Wold, A. E. (2006) · Microbes and Infection · doi:10.1016/j.micinf.2005.10.011 · Cited by 164

Colonization outwith the colon: plants as an alternative environmental reservoir for human pathogenic enterobacteria

Holden, N., Pritchard, L., & Toth, I. (2009) · FEMS Microbiology Reviews · doi:10.1111/j.1574-6976.2008.00153.x · Cited by 164

Whole-genome phylogeny of Escherichia coli/Shigella group by feature frequency profiles (FFPs)

Sims, G. E., & Kim, S.-H. (2011) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1105168108 · Cited by 164

Impact of homologous and non-homologous recombination in the genomic evolution of Escherichia coli

Didelot, X., Méric, G., Falush, D., & Darling, A. E. (2012) · BMC Genomics · doi:10.1186/1471-2164-13-256 · Cited by 162

Pathogenicity island markers in commensal and uropathogenic Escherichia coli isolates

Sabaté, M., Moreno, E., Pérez, T., Andreu, A., & Prats, G. (2006) · Clinical Microbiology and Infection · doi:10.1111/j.1469-0691.2006.01461.x · Cited by 161

Genotoxicity of Escherichia coli Nissle 1917 strain cannot be dissociated from its probiotic activity

Olier, M., Marcq, I., Salvador-Cartier, C., Secher, T., Dobrindt, U., Boury, M., Bacquié, V., Penary, M., Gaultier, E., Nougayrède, J.-P., et al. (2012) · Gut Microbes · doi:10.4161/gmic.21737 · Cited by 159

Construction of consecutive deletions of the Escherichia coli chromosome

Kato, J., & Hashimoto, M. (2007) · Molecular Systems Biology · doi:10.1038/msb4100174 · Cited by 152

Molecular evolution of the Escherichia coli chromosome. III. Clonal frames.

Milkman, R., & Bridges, M. M. (1990) · Genetics · doi:10.1093/genetics/126.3.505 · Cited by 150

The affinity of the FimH fimbrial adhesin is receptor‐driven and quasi‐independent of Escherichia coli pathotypes

Bouckaert, J. M. J., Mackenzie, J., de Paz, J. L., Chipwaza, B., Choudhury, D., Zavialov, A. V., Mannerstedt, K., Anderson, J., Piérard, D., Wyns, L., et al. (2006) · Molecular Microbiology · doi:10.1111/j.1365-2958.2006.05352.x · Cited by 149

The Association of Virulence Factors with Genomic Islands

Sui, S. J. H., Fedynak, A., Hsiao, W., Langille, M. G. I., & Brinkman, F. S. L. (2009) · PLoS ONE · doi:10.1371/journal.pone.0008094 · Cited by 148

Grazing protozoa and the evolution of the Escherichia coli O157:H7 Shiga toxin-encoding prophage

Steinberg, K. M., & Levin, B. R. (2007) · Proceedings of the Royal Society B Biological Sciences · doi:10.1098/rspb.2007.0245 · Cited by 146

The influence of the accessory genome on bacterial pathogen evolution

Jackson, R. W., Vinatzer, B. A., Arnold, D. L., Dorus, S., & Murillo, J. (2011) · Mobile Genetic Elements · doi:10.4161/mge.1.1.16432 · Cited by 144

The ferric yersiniabactin uptake receptor FyuA is required for efficient biofilm formation by urinary tract infectious Escherichia coli in human urine

Hancock, V., Ferrières, L., & Klemm, P. (2008) · Microbiology · doi:10.1099/mic.0.2007/011981-0 · Cited by 144

Resident Colonic Escherichia coli Strains Frequently Display Uropathogenic Characteristics

Wold, A. E., Caugant, D. A., Lidin-Janson, G., de Man, P., & Svanborg, C. (1992) · The Journal of Infectious Diseases · doi:10.1093/infdis/165.1.46 · Cited by 143

Genomic Islands of Uropathogenic Escherichia coli Contribute to Virulence

Lloyd, A. L., Henderson, T. A., Vigil, P. D., & Mobley, H. L. T. (2009) · Journal of Bacteriology · doi:10.1128/jb.01717-08 · Cited by 143

Host Imprints on Bacterial Genomes—Rapid, Divergent Evolution in Individual Patients

Zdziarski, J., Brzuszkiewicz, E., Wullt, B., Liesegang, H., Biran, D., Voigt, B., Grönberg-Hernández, J., Ragnarsdóttir, B., Hecker, M., Ron, E. Z., et al. (2010) · PLoS Pathogens · doi:10.1371/journal.ppat.1001078 · Cited by 139

A double-blind placebo-controlled trial to study therapeutic effects of probiotic Escherichia coli Nissle 1917 in subgroups of patients with irritable bowel syndrome

Kruis, W., Chrubasik, S., Boehm, S., Stange, C., & Schulze, J. (2011) · International Journal of Colorectal Disease · doi:10.1007/s00384-011-1363-9 · Cited by 130

Probiotic Escherichia coli strain Nissle 1917 outcompetes intestinalpathogens during biofilm formation

Hancock, V., Dahl, M., & Klemm, P. (2010) · Journal of Medical Microbiology · doi:10.1099/jmm.0.008672-0 · Cited by 130

Molecular Characterization of the Escherichia coli Asymptomatic Bacteriuria Strain 83972: the Taming of a Pathogen

Klemm, P., Roos, V., Ulett, G. C., Svanborg, C., & Schembri, M. A. (2005) · Infection and Immunity · doi:10.1128/iai.74.1.781-785.2006 · Cited by 127

Molecular Basis of Commensalism in the Urinary Tract: Low Virulence or Virulence Attenuation?

Zdziarski, J., Svanborg, C., Wullt, B., Hacker, J. H., & Dobrindt, U. (2007) · Infection and Immunity · doi:10.1128/iai.01215-07 · Cited by 125

A Comparative Genomic Analysis of Diverse Clonal Types of EnterotoxigenicEscherichia coliReveals Pathovar-Specific Conservation

Sahl, J. W., Steinsland, H., Redman, J. C., Angiuoli, S. V., Nataro, J. P., Sommerfelt, H., & Rasko, D. A. (2010) · Infection and Immunity · doi:10.1128/iai.00932-10 · Cited by 123

Prokaryotic Chromosomes and Disease

Hacker, J. H., Hentschel, U., & Dobrindt, U. (2003) · Science · doi:10.1126/science.1086802 · Cited by 119

Pathogenicity-Associated Islands in Extraintestinal Pathogenic Escherichia coli Are Fitness Elements Involved in Intestinal Colonization

Diard, M., Garry, L., Selva, M., Mosser, T., Denamur, É., & Matić, I. (2010) · Journal of Bacteriology · doi:10.1128/jb.00804-10 · Cited by 119

The ETT2 Gene Cluster, Encoding a Second Type III Secretion System from Escherichia coli , Is Present in the Majority of Strains but Has Undergone Widespread Mutational Attrition

Ren, C.-P., Chaudhuri, R. R., Fivian, A., et al. (2004) · Journal of Bacteriology · doi:10.1128/jb.186.11.3547-3560.2004 · Cited by 119

Derivation of Escherichia coli O157:H7 from Its O55:H7 Precursor

Zhou, Z., Li, X., Liu, B., Beutin, L., Xu, J., Ren, Y. X., Feng, L., Lan, R., Reeves, P. R., & Wang, L. (2010) · PLoS ONE · doi:10.1371/journal.pone.0008700 · Cited by 116

FURTHER OBSERVATIONS ON THE PERSISTENCE OF INDIVIDUAL STRAINS OF ESCHERICHIA COLI IN THE INTESTINAL TRACT OF MAN

Sears, H. J., & Brownlee, I. (1952) · Journal of Bacteriology · doi:10.1128/jb.63.1.47-57.1952 · Cited by 115

Genome dynamics in major bacterial pathogens

Ambur, O. H., Davidsen, T., Frye, S. A., Balasingham, S. V., Lagesen, K., Rognes, T., & Tønjum, T. (2009) · FEMS Microbiology Reviews · doi:10.1111/j.1574-6976.2009.00173.x · Cited by 114

Insights into the Environmental Resistance Gene Pool from the Genome Sequence of the Multidrug-Resistant Environmental Isolate Escherichia coli SMS-3-5

Fricke, W. F., Wright, M. S., Lindell, A. H., Harkins, D. M., Baker‐Austin, C., Ravel, J., & Stepanauskas, R. (2008) · Journal of Bacteriology · doi:10.1128/jb.00661-08 · Cited by 111

Escherichia coli strains with the capacity for long-term persistence in the bowel microbiota carry the potentially genotoxic pks island

Nowrouzian, F. L., & Oswald, É. (2012) · Microbial Pathogenesis · doi:10.1016/j.micpath.2012.05.011 · Cited by 107

Role of Intraspecies Recombination in the Spread of Pathogenicity Islands within the Escherichia coli Species

Schubert, S., Darlu, P., Clermont, O., Wieser, A., Magistro, G., Hoffmann, C., Weinert, K., Tenaillon, O., Matić, I., & Denamur, É. (2009) · PLoS Pathogens · doi:10.1371/journal.ppat.1000257 · Cited by 107

Sugar metabolism, an additional virulence factor in enterobacteria

Bouguénec, C. L., & Schouler, C. (2010) · International Journal of Medical Microbiology · doi:10.1016/j.ijmm.2010.04.021 · Cited by 98

Complete Genome Sequence and Comparative Analysis of the Wild-type Commensal Escherichia coli Strain SE11 Isolated from a Healthy Adult

Oshima, K., Toh, H., Ogura, Y., Sasamoto, H., Morita, H., Park, S.-H., Ooka, T., Iyoda, S., Taylor, T. D., Hayashi, T., et al. (2008) · DNA Research · doi:10.1093/dnares/dsn026 · Cited by 97

Efficient computation of the phylogenetic likelihood function on multi-gene alignments and multi-core architectures

Stamatakis, A., & Ott, M. (2008) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2008.0163 · Cited by 92

Escherichia coli Strain Nissle 1917: Significant Reduction of Neonatal Calf Diarrhea

von Buenau, R., Jaekel, L., Schubotz, E., Schwarz, Š., Stroff, T., & Krueger, M. (2005) · Journal of Dairy Science · doi:10.3168/jds.s0022-0302(05)72690-4 · Cited by 91

Pathogenicity Island Markers, Virulence Determinants malX and usp , and the Capacity of Escherichia coli To Persist in Infants' Commensal Microbiotas

Östblom, A., Adlerberth, I., Wold, A. E., & Nowrouzian, F. L. (2011) · Applied and Environmental Microbiology · doi:10.1128/aem.02405-10 · Cited by 88

Impact of biofilm matrix components on interaction of commensal Escherichia coli with the gastrointestinal cell line HT-29

Wang, X., Rochón, M., Lamprokostopoulou, A., Lünsdorf, H., Nimtz, M., & Römling, U. (2006) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-006-6222-4 · Cited by 87

Characterization of cellulose production in Escherichia coli Nissle 1917 and its biological consequences

Monteiro, C., Saxena, I. M., Wang, X., Kader, A., Bokranz, W., Simm, R., Nobles, D. R., Chromek, M., Brauner, A., Brown, R. M., et al. (2009) · Environmental Microbiology · doi:10.1111/j.1462-2920.2008.01840.x · Cited by 86

Uropathogenic Escherichia coli use d ‐serine deaminase to modulate infection of the murine urinary tract

Roesch, P. L., Redford, P., Batchelet, S., Moritz, R. L., Pellett, S., Haugen, B. J., Blattner, F. R., & Welch, R. A. (2003) · Molecular Microbiology · doi:10.1046/j.1365-2958.2003.03543.x · Cited by 84

Roles of Serine Accumulation and Catabolism in the Colonization of the Murine Urinary Tract by Escherichia coli CFT073

Anfora, A., Haugen, B. J., Roesch, P. L., Redford, P., & Welch, R. A. (2007) · Infection and Immunity · doi:10.1128/iai.00652-07 · Cited by 84

Bacteriocin synthesis in uropathogenic and commensal Escherichia coli: colicin E1 is a potential virulence factor

Šmajs, D., Micenková, L., Šmarda, J., Vrba, M., Ševčíková, A., Vališová, Z., & Woznicová, V. (2010) · BMC Microbiology · doi:10.1186/1471-2180-10-288 · Cited by 83

P fimbriae, capsule and aerobactin characterize colonic resident Escherichia coli

Nowrouzian, F. L., Adlerberth, I., & Wold, A. E. (2001) · Epidemiology and Infection · doi:10.1017/s0950268801005118 · Cited by 80

Asymptomatic bacteriuria Escherichia coli strain 83972 carries mutations in the foc locus and is unable to express F1C fimbriae

Roos, V., Schembri, M. A., Ulett, G. C., & Klemm, P. (2006) · Microbiology · doi:10.1099/mic.0.28711-0 · Cited by 78

The Salmochelin Siderophore Receptor IroN Contributes to Invasion of Urothelial Cells by Extraintestinal Pathogenic Escherichia coli In Vitro

Feldmann, F., Sorsa, L. J., Hildinger, K., & Schubert, S. (2007) · Infection and Immunity · doi:10.1128/iai.00656-06 · Cited by 78

Genome Sequences and Phylogenetic Analysis of K88- and F18-Positive Porcine Enterotoxigenic Escherichia coli

Shepard, S. M., Danzeisen, J. L., Isaacson, R. E., Seemann, T., Achtman, M., & Johnson, T. J. (2011) · Journal of Bacteriology · doi:10.1128/jb.06225-11 · Cited by 77

Functional genomics of probiotic Escherichia coli Nissle 1917 and 83972, and UPEC strain CFT073: comparison of transcriptomes, growth and biofilm formation

Hancock, V., Vejborg, R. M., & Klemm, P. (2010) · Molecular Genetics and Genomics · doi:10.1007/s00438-010-0578-8 · Cited by 77

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. (2010) · Molecular Genetics and Genomics · doi:10.1007/s00438-010-0532-9 · Cited by 77

Comparative Structure-Function Analysis of Mannose-Specific FimH Adhesins from Klebsiella pneumoniae and Escherichia coli

Stahlhut, S. G., Tchesnokova, V. L., Struve, C., Weissman, S. J., Chattopadhyay, S., Yakovenko, O., Aprikian, P., Sokurenko, E. V., & Krogfelt, K. A. (2009) · Journal of Bacteriology · doi:10.1128/jb.00786-09 · Cited by 73

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. (2006) · Genome biology · doi:10.1186/gb-2006-7-5-r44 · Cited by 71

Core and Panmetabolism in Escherichia coli

Vieira, G., Sabarly, V., Bourguignon, P.-Y., Durot, M., Fèvre, F. L., Mornico, D., Vallenet, D., Bouvet, O. M. M., Denamur, É., Schächter, V., et al. (2011) · Journal of Bacteriology · doi:10.1128/jb.01192-10 · Cited by 70

Complete Genome Sequence of Adherent Invasive Escherichia coli UM146 Isolated from Ileal Crohn's Disease Biopsy Tissue

Krause, D. O., Little, A. C., Dowd, S. E., et al. (2010) · Journal of Bacteriology · doi:10.1128/jb.01290-10 · Cited by 68

Iha from an Escherichia coli Urinary Tract Infection Outbreak Clonal Group A Strain Is Expressed In Vivo in the Mouse Urinary Tract and Functions as a Catecholate Siderophore Receptor

Léveillé, S., Caza, M., Johnson, J. R., Clabots, C., Sabri, M., & Dozois, C. M. (2006) · Infection and Immunity · doi:10.1128/iai.00107-06 · Cited by 67

Comparison of Asymptomatic Bacteriuria Escherichia coli Isolates from Healthy Individuals versus Those from Hospital Patients Shows that Long-Term Bladder Colonization Selects for Attenuated Virulence Phenotypes

Salvador, E., Wagenlehner, F., Köhler, C.-D., Mellmann, A., Hacker, J. H., Svanborg, C., & Dobrindt, U. (2011) · Infection and Immunity · doi:10.1128/iai.06191-11 · Cited by 66

Diversity analysis of commensal porcine Escherichia coli – associations between genotypes and habitat in the porcine gastrointestinal tract

Dixit, S. M., Gordon, D. M., Wu, X., Chapman, T. A., Kailasapathy, K., & Chin, J. J.-C. (2004) · Microbiology · doi:10.1099/mic.0.26733-0 · Cited by 64

The K5 Capsule of Escherichia coli Strain Nissle 1917 Is Important in Mediating Interactions with Intestinal Epithelial Cells and Chemokine Induction

Hafez, M., Hayes, K. S., Goldrick, M., Warhurst, G., Grencis, R. K., & Roberts, I. S. (2009) · Infection and Immunity · doi:10.1128/iai.00040-09 · Cited by 64

E. coli Nissle 1917 Affects Salmonella Adhesion to Porcine Intestinal Epithelial Cells

Schierack, P., Kleta, S., Tedin, K., Babila, J. T., Oswald, S., Oelschlaeger, T. A., Hiemann, R., Paetzold, S., & Wieler, L. H. (2011) · PLoS ONE · doi:10.1371/journal.pone.0014712 · Cited by 63

Caenorhabditis elegans as a simple model to study phenotypic and genetic virulence determinants of extraintestinal pathogenic Escherichia coli

Diard, M., Baeriswyl, S., Clermont, O., Gouriou, S., Picard, B., Taddéi, F., Denamur, É., & Matić, I. (2006) · Microbes and Infection · doi:10.1016/j.micinf.2006.11.009 · Cited by 63

Acute Escherichia coli Prostatitis in Previously Health Young Men: Bacterial Virulence Factors, Antimicrobial Resistance, and Clinical Outcomes

Krieger, J. N., Dobrindt, U., Riley, D. E., & Oswald, É. (2011) · Urology · doi:10.1016/j.urology.2010.12.059 · Cited by 59

Phylogenetic groups and virulence factors in pathogenic and commensal strains of Escherichia coli and their association with blaCTX-M.

Lee, S., Yu, J. K., Park, K.-G., Oh, E., Kim, S., & Park, Y.-J. (2010) · PubMed · Cited by 58

The host response to the probiotic Escherichia coli strain Nissle 1917: Specific up-regulation of the proinflammatory chemokine MCP-1

Ukena, S. N., Westendorf, A. M., Hansen, W., Rohde, M., Geffers, R., Coldewey, S. M., Suerbaum, S., Buer, J., & Gunzer, F. (2005) · BMC Medical Genetics · doi:10.1186/1471-2350-6-43 · Cited by 58

A Genomic Island of an Extraintestinal Pathogenic Escherichia coli Strain Enables the Metabolism of Fructooligosaccharides, Which Improves Intestinal Colonization

Schouler, C., Taki, A., Chouikha, I., Moulin-Schouleur, M., & Gilot, P. (2008) · Journal of Bacteriology · doi:10.1128/jb.01052-08 · Cited by 57

Complete Genome Sequence of the Wild-Type Commensal Escherichia coli Strain SE15, Belonging to Phylogenetic Group B2

Toh, H., Oshima, K., Toyoda, A., Ogura, Y., Ooka, T., Sasamoto, H., Park, S.-H., Iyoda, S., Kurokawa, K., Morita, H., et al. (2009) · Journal of Bacteriology · doi:10.1128/jb.01543-09 · Cited by 53

ExPEC‐typical virulence‐associated genes correlate with successful colonization by intestinal E. coli in a small piglet group

Schierack, P., Walk, N., Ewers, C., Wilking, H., Steinrück, H., Filter, M., & Wieler, L. H. (2008) · Environmental Microbiology · doi:10.1111/j.1462-2920.2008.01595.x · Cited by 52

Anti-inflammatory modulation of immune response by probiotic Escherichia coli Nissle 1917 in human blood mononuclear cells

Güttsches, A., Löseke, S., Zähringer, U., Sonnenborn, U., Enders, C., Gatermann, S. G., & Bufe, A. (2011) · Innate Immunity · doi:10.1177/1753425910396251 · Cited by 52

The Yersinia high-pathogenicity island is highly predominant in virulence-associated phylogenetic groups of Escherichia coli

Clermont, O., Bonacorsi, S., & Bingen, É. (2001) · FEMS Microbiology Letters · doi:10.1016/s0378-1097(01)00060-x · Cited by 51

Complete Genome Sequence of the Crohn's Disease-Associated Adherent-Invasive Escherichia coliStrain HM605

Clarke, D. J., Chaudhuri, R. R., Martin, H., et al. (2011) · Journal of Bacteriology · doi:10.1128/jb.05374-11 · Cited by 50

Characterization of the flexible genome complement of the commensal Escherichia coli strain A0 34/86 (O83 : K24 : H31)

Holubová, J., Dobrindt, U., Nemcová, R., Rusniok, C., Bomba, A., Frangeul, L., Hacker, J. H., Glaser, P., Šebo, P., & Buchrieser, C. (2005) · Microbiology · doi:10.1099/mic.0.27469-0 · Cited by 50

Conversion of Commensal Escherichia coli K-12 to an Invasive Form via Expression of a Mutant Histone-Like Protein

Koli, P., Sudan, S., FitzGerald, D. J., Adhya, S., & Kar, S. (2011) · mBio · doi:10.1128/mbio.00182-11 · Cited by 49

A subset of mucosa-associated Escherichia coli isolates from patients with colon cancer, but not Crohn's disease, share pathogenicity islands with urinary pathogenic E. coli

Bronowski, C., Smith, S. L., Yokota, K., CORKILL, J. E., Martin, H., Campbell, B. J., Rhodes, J. M., Hart, C. A., & Winstanley, C. (2008) · Microbiology · doi:10.1099/mic.0.2007/013086-0 · Cited by 49

Probiotic Escherichia coli Nissle 1917 activates DC and prevents house dust mite allergy through a TLR4‐dependent pathway

Adam, E., Delbrassinne, L., Bouillot, C., Reynders, V., Mailleux, A., Muraille, É., & Jacquet, A. (2010) · European Journal of Immunology · doi:10.1002/eji.200939913 · Cited by 46

The Probiotic Escherichia coli Nissle 1917 Reduces Pathogen Invasion and Modulates Cytokine Expression in Caco-2 Cells Infected with Crohn's Disease-Associated E. coli LF82

Hüebner, C., Ding, Y., Petermann, I., Knapp, C., & Ferguson, L. R. (2011) · Applied and Environmental Microbiology · doi:10.1128/aem.01601-10 · Cited by 44

Phylomark, a Tool To Identify Conserved Phylogenetic Markers from Whole-Genome Alignments

Sahl, J. W., Matalka, M. N., & Rasko, D. A. (2012) · Applied and Environmental Microbiology · doi:10.1128/aem.00929-12 · Cited by 44

Phylogenetic Groups and Pathogenicity Island Markers in Fecal Escherichia coli Isolates from Asymptomatic Humans in China

Li, B., Sun, J., Han, L., Huang, X.-H., Fu, Q., & Ni, Y. (2010) · Applied and Environmental Microbiology · doi:10.1128/aem.00707-10 · Cited by 42

A genomic population genetics analysis of the pathogenic enterocyte effacement island in Escherichia coli : The search for the unit of selection

Castillo, A., Eguiarte, L. E., & Souza, V. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0408633102 · Cited by 40

Complete Genome Sequence of the Neonatal-Meningitis-Associated Escherichia coli Strain CE10

Lu, S., Zhang, X., Zhu, Y., Kim, K. S., Yang, J., & Jin, Q. (2011) · Journal of Bacteriology · doi:10.1128/jb.06284-11 · Cited by 37

DsdX Is the Second d -Serine Transporter in Uropathogenic Escherichia coli Clinical Isolate CFT073

Anfora, A., & Welch, R. A. (2006) · Journal of Bacteriology · doi:10.1128/jb.00634-06 · Cited by 37

In Vitro Analysis of the Bactericidal Activity of Escherichia Coli Nissle 1917 Against Pediatric Uropathogens

Storm, D. W., Koff, S. A., Horvath, D. J., Li, B., & Justice, S. S. (2011) · The Journal of Urology · doi:10.1016/j.juro.2011.04.021 · Cited by 33

Order and Disorder during Escherichia coli Divergence

Hendrickson, H. L. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000335 · Cited by 32

Mobilisation and remobilisation of a large archetypal pathogenicity island of uropathogenic Escherichia coli in vitrosupport the role of conjugation for horizontal transfer of genomic islands

Schneider, G., Dobrindt, U., Middendorf, B., Hochhut, B., Szijártó, V., Emödy, L., & Hacker, J. H. (2011) · BMC Microbiology · doi:10.1186/1471-2180-11-210 · Cited by 32

Chromosomal instability in enterohaemorrhagic Escherichia coli O157:H7: impact on adherence, tellurite resistance and colony phenotype

Bielaszewska, M., Middendorf, B., Tarr, P. I., Zhang, W., Prager, R., Aldick, T., Dobrindt, U., Karch, H., & Mellmann, A. (2010) · Molecular Microbiology · doi:10.1111/j.1365-2958.2010.07499.x · Cited by 31

O‐acetyltransferase gene neuO is segregated according to phylogenetic background and contributes to environmental desiccation resistance in Escherichia coli K1

Mordhorst, I. L., Claus, H., Ewers, C., Lappann, M., Schoen, C. U., Elias, J., Batzilla, J., Dobrindt, U., Wieler, L. H., Bergfeld, A. K., et al. (2009) · Environmental Microbiology · doi:10.1111/j.1462-2920.2009.02019.x · Cited by 29

Caco-2 cell monolayer integrity and effect of probiotic Escherichia coli Nissle 1917 components.

Štětinová, V., Smetanová, L., Kvetina, J., et al. (2010) · PubMed · Cited by 27

Pathogenomics

(2006) · Wiley eBooks · doi:10.1002/352760801x · Cited by 26

Use of Deoxyribose by Intestinal and Extraintestinal Pathogenic Escherichia coli Strains: a Metabolic Adaptation Involved in Competitiveness

Bernier-Fébreau, C., du Merle, L., Turlin, É., Labas, V., Ordonez, J., Gilles, A., & Bouguénec, C. L. (2004) · Infection and Immunity · doi:10.1128/iai.72.10.6151-6156.2004 · Cited by 26

Evidence of horizontal gene transfer between human and animal commensalEscherichia colistrains identified by microarray

Grasselli, E., François, P., Gutacker, M. M., Gettler, B., Benagli, C., Convert, M., Boerlin, P., Schrenzel, J., & Piffaretti, J.-C. (2008) · FEMS Immunology & Medical Microbiology · doi:10.1111/j.1574-695x.2008.00434.x · Cited by 26

Calculating Orthologs in Bacteria and Archaea: A Divide and Conquer Approach

Halachev, M. R., Loman, N. J., & Pallen, M. J. (2011) · PLoS ONE · doi:10.1371/journal.pone.0028388 · Cited by 25

Obscured phylogeny and possible recombinational dormancy in Escherichia coli

Leopold, S. R., Sawyer, S. A., Whittam, T. S., & Tarr, P. I. (2011) · BMC Evolutionary Biology · doi:10.1186/1471-2148-11-183 · Cited by 24

Phylogenetic group B2 Escherichia coli strains from the bowel microbiota of Pakistani infants carry few virulence genes and lack the capacity for long-term persistence

Nowrouzian, F. L., Östblom, A., Wold, A. E., & Adlerberth, I. (2009) · Clinical Microbiology and Infection · doi:10.1111/j.1469-0691.2009.02706.x · Cited by 24

Toxin-induced calcium oscillations: a novel strategy to affect gene regulation in target cells

Söderblom, T., Laestadius, Å., Oxhamre, C., Aperia, A. C., & Richter‐Dahlfors, A. (2001) · International Journal of Medical Microbiology · doi:10.1078/1438-4221-00160 · Cited by 20

Effect of Fructooligosaccharide Metabolism on Chicken Colonization by an Extra-Intestinal Pathogenic Escherichia coli Strain

Porcheron, G., Chanteloup, N., Trotereau, A., Brée, A., & Schouler, C. (2012) · PLoS ONE · doi:10.1371/journal.pone.0035475 · Cited by 18

Antibiotic resistance in microbes: History, mechanisms, therapeutic strategies and future prospects

Uddin, T. M., Chakraborty, A. J., Khusro, A., Zidan, B. R. M., Mitra, S., Emran, T. B., Dhama, K., Ripon, M. K. H., Gajdács, M., Sahibzada, M. U. K., et al. (2021) · Journal of Infection and Public Health · doi:10.1016/j.jiph.2021.10.020 · Cited by 1,311

Diversity within Species: Interpreting Strains in Microbiomes

Van Rossum, T., Ferretti, P., Maistrenko, O. M., & Bork, P. (2020) · Nature Reviews Microbiology · doi:10.1038/s41579-020-0368-1 · Cited by 441

Regulation of life span by the gut microbiota in the short-lived African turquoise killifish

Smith, P., Willemsen, D., Popkes, M., Metge, F., Gandiwa, E., Reichard, M., & Valenzano, D. R. (2017) · eLife · doi:10.7554/elife.27014 · Cited by 423

Regulation of Bacterial Virulence by Csr (Rsm) Systems

Vakulskas, C. A., Potts, A. H., Babitzke, P., Ahmer, B. M. M., & Romeo, T. (2015) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00052-14 · Cited by 346

Species- and site-specific genome editing in complex bacterial communities

Rubin, B. E., Diamond, S., Cress, B. F., Crits-Christoph, A., Lou, Y. C., Borges, A. L., Shivram, H., He, C., Xu, M., Zhou, Z., et al. (2021) · Nature Microbiology · doi:10.1038/s41564-021-01014-7 · Cited by 322