Published in Mol Biol Evol on February 21, 2012
Reducing assembly complexity of microbial genomes with single-molecule sequencing. Genome Biol (2013) 4.55
On the evolutionary history, population genetics and diversity among isolates of Salmonella Enteritidis PFGE pattern JEGX01.0004. PLoS One (2013) 1.69
The evolutionary path to extraintestinal pathogenic, drug-resistant Escherichia coli is marked by drastic reduction in detectable recombination within the core genome. Genome Biol Evol (2013) 1.11
Escherichia coli serotype O55:H7 diversity supports parallel acquisition of bacteriophage at Shiga toxin phage insertion sites during evolution of the O157:H7 lineage. J Bacteriol (2012) 1.10
Carriage of stx2a differentiates clinical and bovine-biased strains of Escherichia coli O157. PLoS One (2012) 1.06
Multilocus genotype analysis of Escherichia coli O157 isolates from Australia and the United States provides evidence of geographic divergence. Appl Environ Microbiol (2013) 1.01
Predicting the public health benefit of vaccinating cattle against Escherichia coli O157. Proc Natl Acad Sci U S A (2013) 0.99
Genotypic Analysis of E. coli Strains Isolated from Patients with Cystitis and Pyelonephritis. Iran Red Crescent Med J (2012) 0.98
Enterohemorrhagic Escherichia coli as causes of hemolytic uremic syndrome in the Czech Republic. PLoS One (2013) 0.92
Lineage and genogroup-defining single nucleotide polymorphisms of Escherichia coli O157:H7. Appl Environ Microbiol (2013) 0.83
Future perspectives, applications and challenges of genomic epidemiology studies for food-borne pathogens: A case study of Enterohemorrhagic Escherichia coli (EHEC) of the O157:H7 serotype. Gut Microbes (2014) 0.80
Geographically distinct Escherichia coli O157 isolates differ by lineage, Shiga toxin genotype, and total shiga toxin production. J Clin Microbiol (2014) 0.77
Comparison of whole genome sequences from human and non-human Escherichia coli O26 strains. Front Cell Infect Microbiol (2015) 0.77
Canonical Single Nucleotide Polymorphisms (SNPs) for High-Resolution Subtyping of Shiga-Toxin Producing Escherichia coli (STEC) O157:H7. PLoS One (2015) 0.76
The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res (1997) 175.36
Haploview: analysis and visualization of LD and haplotype maps. Bioinformatics (2004) 125.23
Genome sequence of enterohaemorrhagic Escherichia coli O157:H7. Nature (2001) 23.49
TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics (2002) 19.27
The epidemiology of infections caused by Escherichia coli O157:H7, other enterohemorrhagic E. coli, and the associated hemolytic uremic syndrome. Epidemiol Rev (1991) 17.90
Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12. DNA Res (2001) 15.22
Standardization of pulsed-field gel electrophoresis protocols for the subtyping of Escherichia coli O157:H7, Salmonella, and Shigella for PulseNet. Foodborne Pathog Dis (2006) 11.82
Dendroscope: An interactive viewer for large phylogenetic trees. BMC Bioinformatics (2007) 11.03
Detection and characterization of Shiga toxigenic Escherichia coli by using multiplex PCR assays for stx1, stx2, eaeA, enterohemorrhagic E. coli hlyA, rfbO111, and rfbO157. J Clin Microbiol (1998) 6.91
Clonal relationships among Escherichia coli strains that cause hemorrhagic colitis and infantile diarrhea. Infect Immun (1993) 6.72
Bovine reservoir for verotoxin-producing Escherichia coli O157:H7. Lancet (1987) 5.63
Isolation of Escherichia coli serotype O157:H7 and other Shiga-like-toxin-producing E. coli from dairy cattle. J Clin Microbiol (1991) 4.69
Escherichia coli O157:H7. Lancet (1998) 4.42
Variation in virulence among clades of Escherichia coli O157:H7 associated with disease outbreaks. Proc Natl Acad Sci U S A (2008) 3.69
Correlation of enterohemorrhagic Escherichia coli O157 prevalence in feces, hides, and carcasses of beef cattle during processing. Proc Natl Acad Sci U S A (2000) 3.61
PulseNet USA: a five-year update. Foodborne Pathog Dis (2006) 3.59
Molecular detection of sorbitol-fermenting Escherichia coli O157 in patients with hemolytic-uremic syndrome. J Clin Microbiol (1992) 3.57
Use of the flagellar H7 gene as a target in multiplex PCR assays and improved specificity in identification of enterohemorrhagic Escherichia coli strains. J Clin Microbiol (1997) 2.98
Subtyping method for Escherichia coli shiga toxin (verocytotoxin) 2 variants and correlations to clinical manifestations. J Clin Microbiol (2007) 2.64
Escherichia coli O157:H7 Shiga toxin-encoding bacteriophages: integrations, excisions, truncations, and evolutionary implications. J Bacteriol (2003) 2.43
Incidence and tracking of Escherichia coli O157:H7 in a major produce production region in California. PLoS One (2007) 2.42
Octamer-based genome scanning distinguishes a unique subpopulation of Escherichia coli O157:H7 strains in cattle. Proc Natl Acad Sci U S A (1999) 2.32
Evaluation of pulsed-field gel electrophoresis as a tool for determining the degree of genetic relatedness between strains of Escherichia coli O157:H7. J Clin Microbiol (2003) 2.27
Escherichia coli O157:H7: animal reservoir and sources of human infection. Foodborne Pathog Dis (2010) 2.12
Virulence factors of Escherichia coli O157 and other Shiga toxin-producing E. coli. J Appl Microbiol (2000) 2.00
Probing genomic diversity and evolution of Escherichia coli O157 by single nucleotide polymorphisms. Genome Res (2006) 1.87
A precise reconstruction of the emergence and constrained radiations of Escherichia coli O157 portrayed by backbone concatenomic analysis. Proc Natl Acad Sci U S A (2009) 1.87
Escherichia coli O157:H7 in feral swine near spinach fields and cattle, central California coast. Emerg Infect Dis (2007) 1.84
Specific interaction of Escherichia coli O157:H7-derived Shiga-like toxin II with human renal endothelial cells. J Infect Dis (1995) 1.81
Greater diversity of Shiga toxin-encoding bacteriophage insertion sites among Escherichia coli O157:H7 isolates from cattle than in those from humans. Appl Environ Microbiol (2006) 1.71
MlrA, a novel regulator of curli (AgF) and extracellular matrix synthesis by Escherichia coli and Salmonella enterica serovar Typhimurium. Mol Microbiol (2001) 1.70
Strains of Escherichia coli O157:H7 differ primarily by insertions or deletions, not single-nucleotide polymorphisms. J Bacteriol (2002) 1.68
A comparison of enteropathogenic and enterohaemorrhagic Escherichia coli pathogenesis. FEMS Microbiol Lett (2006) 1.64
Genetic diversity among clonal lineages within Escherichia coli O157:H7 stepwise evolutionary model. Emerg Infect Dis (2007) 1.62
Prevalence and characteristics of shiga toxin-producing Escherichia coli from healthy cattle in Japan. Appl Environ Microbiol (2001) 1.58
Acquisition of the rfb-gnd cluster in evolution of Escherichia coli O55 and O157. J Bacteriol (2000) 1.58
Molecular detection and identification of intimin alleles in pathogenic Escherichia coli by multiplex PCR. J Clin Microbiol (1999) 1.56
Stx2 subtyping of Shiga toxin-producing Escherichia coli isolated from cattle in France: detection of a new Stx2 subtype and correlation with additional virulence factors. J Clin Microbiol (2001) 1.54
Chromosomal dynamism in progeny of outbreak-related sorbitol-fermenting enterohemorrhagic Escherichia coli O157:NM. Appl Environ Microbiol (2006) 1.30
A brief overview of Escherichia coli O157:H7 and its plasmid O157. J Microbiol Biotechnol (2010) 1.29
Production and characterization of monoclonal antibodies specific for the lipopolysaccharide of Escherichia coli O157. J Clin Microbiol (1997) 1.27
Monoclonal antibodies for detection of the H7 antigen of Escherichia coli. Appl Environ Microbiol (1996) 1.26
Association of Escherichia coli O157:H7 tir polymorphisms with human infection. BMC Infect Dis (2007) 1.21
Genetic and evolutionary analysis of mutations in the gusA gene that cause the absence of beta-glucuronidase activity in Escherichia coli O157:H7. J Infect Dis (2001) 1.19
Correlation between geographic distance and genetic similarity in an international collection of bovine faecal Escherichia coli O157:H7 isolates. Epidemiol Infect (2003) 1.16
Cattle can be a reservoir of sorbitol-fermenting shiga toxin-producing Escherichia coli O157:H(-) strains and a source of human diseases. J Clin Microbiol (2000) 1.16
Faecal culture of wild animals for Escherichia coli O157:H7. Vet Rec (2003) 1.14
Escherichia coli O157:H7 in free-ranging deer in Nebraska. J Wildl Dis (2001) 1.14
Interrogating genomic diversity of E. coli O157:H7 using DNA tiling arrays. Forensic Sci Int (2006) 1.14
Relationship between pathogenicity for humans and stx genotype in Shiga toxin-producing Escherichia coli serotype O157. Eur J Clin Microbiol Infect Dis (2007) 1.14
Biochemical characterization of WrbA, founding member of a new family of multimeric flavodoxin-like proteins. J Biol Chem (1998) 1.14
A nested PCR followed by magnetic separation of amplified fragments for detection of Escherichia coli Shiga-like toxin genes. Mol Cell Probes (1991) 1.12
Fim operon variation in the emergence of Enterohemorrhagic Escherichia coli: an evolutionary and functional analysis. FEMS Microbiol Lett (2007) 1.10
Shiga-toxigenic Escherichia coli O157 in agricultural fair livestock, United States. Emerg Infect Dis (2006) 1.08
Effects of repeated subculturing and prolonged storage at room temperature of enterohemorrhagic Escherichia coli O157:H7 on pulsed-field gel electrophoresis profiles. J Clin Microbiol (2002) 1.06
Genome signatures of Escherichia coli O157:H7 isolates from the bovine host reservoir. Appl Environ Microbiol (2011) 1.04
Phylogenetic classification of Escherichia coli O157:H7 strains of human and bovine origin using a novel set of nucleotide polymorphisms. Genome Biol (2009) 1.00
Sorbitol-fermenting enterohaemorrhagic Escherichia coli O157:H- causes another outbreak of haemolytic uraemic syndrome in children. Epidemiol Infect (2009) 0.96
Diverse genetic markers concordantly identify bovine origin Escherichia coli O157 genotypes underrepresented in human disease. Appl Environ Microbiol (2009) 0.95
VTEC O157 subtypes associated with the most severe clinical symptoms in humans constitute a minor part of VTEC O157 isolates from Danish cattle. Int J Med Microbiol (2004) 0.93
Presence of Shiga toxin-producing E. coli O157:H7 in a survey of wild artiodactyls. Vet Microbiol (2006) 0.92
International comparison of clinical, bovine, and environmental Escherichia coli O157 isolates on the basis of Shiga toxin-encoding bacteriophage insertion site genotypes. Appl Environ Microbiol (2008) 0.90
Evaluation of a real-time PCR kit for detecting Escherichia coli O157 in bovine fecal samples. Appl Environ Microbiol (2004) 0.87
Isolation and characterization of Shiga toxin-producing Escherichia coli (STEC) and enteropathogenic Escherichia coli (EPEC) from calves and lambs with diarrhoea in India. Lett Appl Microbiol (2003) 0.86
Sorbitol-fermenting Escherichia coli O157, Scotland. Emerg Infect Dis (2010) 0.85
Sorbitol-fermenting Shiga toxin-producing Escherichia coli O157: indications for an animal reservoir. Epidemiol Infect (2005) 0.85
stx genotype and molecular epidemiological analyses of Shiga toxin-producing Escherichia coli O157:H7/H- in human and cattle isolates. Eur J Clin Microbiol Infect Dis (2011) 0.82
Isolation and characteristics of sorbitol-fermenting Escherichia coli O157 strains from cattle. Microbes Infect (2006) 0.81
Sex and virulence in Escherichia coli: an evolutionary perspective. Mol Microbiol (2006) 14.53
SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries. Nat Methods (2008) 8.26
Characterisation of the Escherichia coli strain associated with an outbreak of haemolytic uraemic syndrome in Germany, 2011: a microbiological study. Lancet Infect Dis (2011) 8.25
The genome sequence of taurine cattle: a window to ruminant biology and evolution. Science (2009) 8.23
Development and characterization of a high density SNP genotyping assay for cattle. PLoS One (2009) 7.06
Prospective genomic characterization of the German enterohemorrhagic Escherichia coli O104:H4 outbreak by rapid next generation sequencing technology. PLoS One (2011) 6.75
Escherichia coli harboring Shiga toxin 2 gene variants: frequency and association with clinical symptoms. J Infect Dis (2001) 5.27
Major structural differences and novel potential virulence mechanisms from the genomes of multiple campylobacter species. PLoS Biol (2005) 5.22
Enterohaemorrhagic Escherichia coli in human medicine. Int J Med Microbiol (2005) 4.63
Reducing assembly complexity of microbial genomes with single-molecule sequencing. Genome Biol (2013) 4.55
The epidemiology of human listeriosis. Microbes Infect (2007) 4.10
Multicenter evaluation of a sequence-based protocol for subtyping Shiga toxins and standardizing Stx nomenclature. J Clin Microbiol (2012) 3.75
Lymphoid follicle-dense mucosa at the terminal rectum is the principal site of colonization of enterohemorrhagic Escherichia coli O157:H7 in the bovine host. Infect Immun (2003) 3.71
Recommendations for diagnosis of shiga toxin--producing Escherichia coli infections by clinical laboratories. MMWR Recomm Rep (2009) 3.33
Excess mortality associated with antimicrobial drug-resistant Salmonella typhimurium. Emerg Infect Dis (2002) 3.32
Short and long term mortality associated with foodborne bacterial gastrointestinal infections: registry based study. BMJ (2003) 3.03
Shiga toxin-producing Escherichia coli in Montana: bacterial genotypes and clinical profiles. J Infect Dis (2003) 2.92
Analysis of collection of hemolytic uremic syndrome-associated enterohemorrhagic Escherichia coli. Emerg Infect Dis (2008) 2.92
Clinical course and the role of shiga toxin-producing Escherichia coli infection in the hemolytic-uremic syndrome in pediatric patients, 1997-2000, in Germany and Austria: a prospective study. J Infect Dis (2002) 2.89
Automated DNA sequence-based early warning system for the detection of methicillin-resistant Staphylococcus aureus outbreaks. PLoS Med (2006) 2.75
Shiga toxin activatable by intestinal mucus in Escherichia coli isolated from humans: predictor for a severe clinical outcome. Clin Infect Dis (2006) 2.75
blaCMY-2-positive IncA/C plasmids from Escherichia coli and Salmonella enterica are a distinct component of a larger lineage of plasmids. Antimicrob Agents Chemother (2009) 2.51
Comparative genomics of Vibrio cholerae from Haiti, Asia, and Africa. Emerg Infect Dis (2011) 2.50
Enterohemorrhagic Escherichia coli in human infection: in vivo evolution of a bacterial pathogen. Clin Infect Dis (2005) 2.50
Incidence and tracking of Escherichia coli O157:H7 in a major produce production region in California. PLoS One (2007) 2.42
Virulence factors for hemolytic uremic syndrome, Denmark. Emerg Infect Dis (2004) 2.40
Analysis of genome plasticity in pathogenic and commensal Escherichia coli isolates by use of DNA arrays. J Bacteriol (2003) 2.36
Identification of loci critical for replication and compatibility of a Borrelia burgdorferi cp32 plasmid and use of a cp32-based shuttle vector for the expression of fluorescent reporters in the lyme disease spirochaete. Mol Microbiol (2002) 2.28
Invasive Escherichia coli are a feature of Crohn's disease. Lab Invest (2007) 2.27
Evaluation of pulsed-field gel electrophoresis as a tool for determining the degree of genetic relatedness between strains of Escherichia coli O157:H7. J Clin Microbiol (2003) 2.27
Comparative genomic analysis of Campylobacter jejuni strains reveals diversity due to genomic elements similar to those present in C. jejuni strain RM1221. J Clin Microbiol (2006) 2.27
Extended multilocus sequence typing system for Campylobacter coli, C. lari, C. upsaliensis, and C. helveticus. J Clin Microbiol (2005) 2.26
Bactericidal activities of plant essential oils and some of their isolated constituents against Campylobacter jejuni, Escherichia coli, Listeria monocytogenes, and Salmonella enterica. J Food Prot (2002) 2.21
Characterization of toxigenic Vibrio cholerae from Haiti, 2010-2011. Emerg Infect Dis (2011) 2.08
Shiga toxin gene loss and transfer in vitro and in vivo during enterohemorrhagic Escherichia coli O26 infection in humans. Appl Environ Microbiol (2007) 2.07
Analysis of copy number variations among diverse cattle breeds. Genome Res (2010) 2.02
Intraspecific phylogeny and lineage group identification based on the prfA virulence gene cluster of Listeria monocytogenes. J Bacteriol (2004) 2.00
Staphylococcal cassette chromosome mec (SCCmec) characterization and molecular analysis for methicillin-resistant Staphylococcus aureus and novel SCCmec subtype IVg isolated from bovine milk in Korea. J Antimicrob Chemother (2005) 1.97
Genetic structure and distribution of the colibactin genomic island among members of the family Enterobacteriaceae. Infect Immun (2009) 1.93
SNP discovery in swine by reduced representation and high throughput pyrosequencing. BMC Genet (2008) 1.92
Comparison of Campylobacter jejuni lipooligosaccharide biosynthesis loci from a variety of sources. J Clin Microbiol (2005) 1.91
Identification of the single base change causing the callipyge muscle hypertrophy phenotype, the only known example of polar overdominance in mammals. Genome Res (2002) 1.91
Role of calf-adapted Escherichia coli in maintenance of antimicrobial drug resistance in dairy calves. Appl Environ Microbiol (2004) 1.90
Etiology of diarrhea in young children in Denmark: a case-control study. J Clin Microbiol (2005) 1.89
A precise reconstruction of the emergence and constrained radiations of Escherichia coli O157 portrayed by backbone concatenomic analysis. Proc Natl Acad Sci U S A (2009) 1.87
Salmonella control programs in Denmark. Emerg Infect Dis (2003) 1.86
The artiodactyl APOBEC3 innate immune repertoire shows evidence for a multi-functional domain organization that existed in the ancestor of placental mammals. BMC Mol Biol (2008) 1.85
Escherichia coli O157:H7 in feral swine near spinach fields and cattle, central California coast. Emerg Infect Dis (2007) 1.84
Single nucleotide polymorphism discovery in rainbow trout by deep sequencing of a reduced representation library. BMC Genomics (2009) 1.81
Selection and use of SNP markers for animal identification and paternity analysis in U.S. beef cattle. Mamm Genome (2002) 1.79
Interpretation of pulsed-field gel electrophoresis patterns in foodborne disease investigations and surveillance. Foodborne Pathog Dis (2006) 1.79
Shiga toxin-encoding bacteriophages--genomes in motion. Int J Med Microbiol (2004) 1.79
The complete genome sequence and analysis of the epsilonproteobacterium Arcobacter butzleri. PLoS One (2007) 1.78
Fresh chicken as main risk factor for campylobacteriosis, Denmark. Emerg Infect Dis (2006) 1.77
Identification of host-associated alleles by multilocus sequence typing of Campylobacter coli strains from food animals. Microbiology (2006) 1.77
Shiga toxin-mediated hemolytic uremic syndrome: time to change the diagnostic paradigm? PLoS One (2007) 1.73
Colonization of Arabidopsis thaliana with Salmonella enterica and enterohemorrhagic Escherichia coli O157:H7 and competition by Enterobacter asburiae. Appl Environ Microbiol (2003) 1.71
Polymorphisms in the prion precursor functional gene but not the pseudogene are associated with susceptibility to chronic wasting disease in white-tailed deer. J Gen Virol (2004) 1.71
Association of Escherichia coli O157:H7 with preharvest leaf lettuce upon exposure to contaminated irrigation water. J Food Prot (2002) 1.70
Climate variability and campylobacter infection: an international study. Int J Biometeorol (2004) 1.69
Mixed-genome microarrays reveal multiple serotype and lineage-specific differences among strains of Listeria monocytogenes. J Clin Microbiol (2003) 1.65
Variability in the region downstream of the blaCMY-2 beta-lactamase gene in Escherichia coli and Salmonella enterica plasmids. Antimicrob Agents Chemother (2006) 1.65
Effects of antibiotics on Shiga toxin 2 production and bacteriophage induction by epidemic Escherichia coli O104:H4 strain. Antimicrob Agents Chemother (2012) 1.62
Genetic diversity among clonal lineages within Escherichia coli O157:H7 stepwise evolutionary model. Emerg Infect Dis (2007) 1.62
Real-time fluorescence PCR assays for detection and characterization of Shiga toxin, intimin, and enterohemolysin genes from Shiga toxin-producing Escherichia coli. J Clin Microbiol (2002) 1.61
Building PulseNet International: an interconnected system of laboratory networks to facilitate timely public health recognition and response to foodborne disease outbreaks and emerging foodborne diseases. Foodborne Pathog Dis (2006) 1.59
Identification, characterization, and distribution of a Shiga toxin 1 gene variant (stx(1c)) in Escherichia coli strains isolated from humans. J Clin Microbiol (2002) 1.58
Discovery and profiling of bovine microRNAs from immune-related and embryonic tissues. Physiol Genomics (2006) 1.58
Discovery of a gene conferring multiple-aminoglycoside resistance in Escherichia coli. Antimicrob Agents Chemother (2010) 1.55
Cytolethal distending toxin gene cluster in enterohemorrhagic Escherichia coli O157:H- and O157:H7: characterization and evolutionary considerations. Infect Immun (2003) 1.55
Identification of unconventional intestinal pathogenic Escherichia coli isolates expressing intermediate virulence factor profiles by using a novel single-step multiplex PCR. Appl Environ Microbiol (2007) 1.55
Structural and functional differences between disease-associated genes of enterohaemorrhagic Escherichia coli O111. Int J Med Microbiol (2006) 1.53
Risk factors for diarrhea among children in an industrialized country. Epidemiology (2006) 1.51
Novel virulence gene and clustered regularly interspaced short palindromic repeat (CRISPR) multilocus sequence typing scheme for subtyping of the major serovars of Salmonella enterica subsp. enterica. Appl Environ Microbiol (2011) 1.51
Serotyping of Listeria monocytogenes by enzyme-linked immunosorbent assay and identification of mixed-serotype cultures by colony immunoblotting. J Clin Microbiol (2003) 1.49
Antimicrobial treatment of asymptomatic carriers of verocytotoxin-producing Escherichia coli: an empiric study. Scand J Infect Dis (2005) 1.48
Duration of fecal shedding of Shiga toxin-producing Escherichia coli O104:H4 in patients infected during the 2011 outbreak in Germany: a multicenter study. Clin Infect Dis (2013) 1.46
Integrating genome-based informatics to modernize global disease monitoring, information sharing, and response. Emerg Infect Dis (2012) 1.45
Shiga toxin 1c-producing Escherichia coli strains: phenotypic and genetic characterization and association with human disease. J Clin Microbiol (2003) 1.45
Fitness of Salmonella enterica serovar Thompson in the cilantro phyllosphere. Appl Environ Microbiol (2002) 1.43
Diversity within the Campylobacter jejuni type I restriction-modification loci. Microbiology (2005) 1.43
Enterohemorrhagic Escherichia coli O26:H11/H-: a new virulent clone emerges in Europe. Clin Infect Dis (2013) 1.43
Identification and distribution of the enterohemorrhagic Escherichia coli factor for adherence (efa1) gene in sorbitol-fermenting Escherichia coli O157: H-. Int J Med Microbiol (2002) 1.40
[Excess mortality associated with antibiotic resistant Salmonella typhimurium]. Ugeskr Laeger (2003) 1.40
Water-borne Campylobacter jejuni infection in a Danish town---a 6-week continuous source outbreak. Clin Microbiol Infect (1998) 1.38
Multiresistant clones of Salmonella enterica: The importance of dissemination. J Lab Clin Med (2002) 1.37
Phenotypic and genotypic analyses of enterohemorrhagic Escherichia coli O145 strains from patients in Germany. J Clin Microbiol (2004) 1.37