List of works - David Rasko

Hybrid error correction and de novo assembly of single-molecule sequencing reads

scientific article

Origins of the E. coli strain causing an outbreak of hemolytic-uremic syndrome in Germany

scientific article

Major structural differences and novel potential virulence mechanisms from the genomes of multiple campylobacter species

scientific article published in January 2005

Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment

scientific article

Patellamide A and C biosynthesis by a microcin-like pathway in Prochloron didemni, the cyanobacterial symbiont of Lissoclinum patella

scientific article

Targeting QseC signaling and virulence for antibiotic development

scientific article

Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species

scientific article

Identification of anthrax toxin genes in a Bacillus cereus associated with an illness resembling inhalation anthrax

scientific article

Multiple antimicrobial resistance in plague: an emerging public health risk

scientific article published on 21 March 2007

The genome sequence of Bacillus cereus ATCC 10987 reveals metabolic adaptations and a large plasmid related to Bacillus anthracis pXO1

scientific article

Visualization of comparative genomic analyses by BLAST score ratio

scientific article

Escherichia coli global gene expression in urine from women with urinary tract infection

scientific article

The QseC adrenergic signaling cascade in Enterohemorrhagic E. coli (EHEC)

scientific article

AB5075, a Highly Virulent Isolate of Acinetobacter baumannii, as a Model Strain for the Evaluation of Pathogenesis and Antimicrobial Treatments.

scientific article

Complete genome sequence and comparative metabolic profiling of the prototypical enteroaggregative Escherichia coli strain 042

scientific article published on 20 January 2010

Genomic characterization of enteroaggregative Escherichia coli from children in Mali

scientific article

Bacillus anthracis comparative genome analysis in support of the Amerithrax investigation

scientific article

Chemical sensing in mammalian host-bacterial commensal associations

scientific article

Autotransporter genes pic and tsh are associated with Escherichia coli strains that cause acute pyelonephritis and are expressed during urinary tract infection

scientific article

Transcriptome of swarming Proteus mirabilis

scientific article

Quantitative PCR for detection of Shigella improves ascertainment of Shigella burden in children with moderate-to-severe diarrhea in low-income countries

scientific article

The complete genome sequence of Yersinia pseudotuberculosis IP31758, the causative agent of Far East scarlet-like fever

scientific article

Genomic comparison of multi-drug resistant invasive and colonizing Acinetobacter baumannii isolated from diverse human body sites reveals genomic plasticity

scientific article

Defining the phylogenomics of Shigella species: a pathway to diagnostics

scientific article

Exploiting the explosion of information associated with whole genome sequencing to tackle Shiga toxin-producing Escherichia coli (STEC) in global food production systems.

scientific article

Whole-genome sequences of Bacillus subtilis and close relatives

scientific article

Genomic diversity of EPEC associated with clinical presentations of differing severity

scientific article

Phylogenetically typing bacterial strains from partial SNP genotypes observed from direct sequencing of clinical specimen metagenomic data.

scientific article

Standardized metadata for human pathogen/vector genomic sequences

scientific article (publication date: 2014)

A transcriptome study of the QseEF two-component system and the QseG membrane protein in enterohaemorrhagic Escherichia coli O157 : H7.

scientific article

Shigella flexneri effectors OspE1 and OspE2 mediate induced adherence to the colonic epithelium following bile salts exposure

scientific article published on May 23, 2012

Circleator: flexible circular visualization of genome-associated data with BioPerl and SVG.

scientific article

A divergent Pseudomonas aeruginosa palmitoyltransferase essential for cystic fibrosis-specific lipid A.

scientific article

Analysis of Shigella flexneri Resistance, Biofilm Formation, and Transcriptional Profile in Response to Bile Salts.

scientific article

Comparative Genomics Provides Insight into the Diversity of the Attaching and Effacing Escherichia coli Virulence Plasmids

scientific article

Investigating the Relatedness of Enteroinvasive Escherichia coli to Other E. coli and Shigella Isolates by Using Comparative Genomics.

scientific article published on 06 June 2016

Bacterial Factors Associated with Lethal Outcome of Enteropathogenic Escherichia coli Infection: Genomic Case-Control Studies

scientific article published on 15 May 2015

Characterization of Klebsiella sp. Strain 10982, a Colonizer of Humans That Contains Novel Antibiotic Resistance Alleles and Exhibits Genetic Similarities to Plant and Clinical Klebsiella Isolates

scientific article published on January 6, 2014

Comparative genomics and transcriptomics of Escherichia coli isolates carrying virulence factors of both enteropathogenic and enterotoxigenic E. coli

scientific article

Diversity among blaKPC-containing plasmids in Escherichia coli and other bacterial species isolated from the same patients

scientific article published on 06 July 2018

Insights into enterotoxigenic Escherichia coli diversity in Bangladesh utilizing genomic epidemiology

scientific article

The role of genomics in the identification, prediction, and prevention of biological threats.

scientific article

Targeted enrichment outperforms other enrichment techniques and enables more multi-species RNA-Seq analyses

scientific article published in Scientific Reports

Genomic and Phenotypic Diversity among Ten Laboratory Isolates of Pseudomonas aeruginosa PAO1

scientific article published on 11 February 2019

Best practices on the differential expression analysis of multi-species RNA-seq

publication published on 29 April 2021

Responses of the Human Gut Escherichia coli Population to Pathogen and Antibiotic Disturbances

scientific article published on 24 July 2018

Comparative genomic analysis and molecular examination of the diversity of enterotoxigenic Escherichia coli isolates from Chile

scientific article published on 20 November 2019

Genome diversity ofShigella boydii

scientific article published on April 6, 2016

Draft Genome Sequences of Nine Enteropathogenic Escherichia coli Strains from Kenya

scientific article published on June 12, 2014

A Novel Proteome Microarray Discriminates Targets of Human Antibody Reactivity following Oral Vaccination and Experimental Challenge

scientific article published on 01 August 2018

List of works by David Rasko

Hybrid error correction and de novo assembly of single-molecule sequencing reads

Origins of the E. coli strain causing an outbreak of hemolytic-uremic syndrome in Germany

Major structural differences and novel potential virulence mechanisms from the genomes of multiple campylobacter species

Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment

Patellamide A and C biosynthesis by a microcin-like pathway in Prochloron didemni, the cyanobacterial symbiont of Lissoclinum patella

Targeting QseC signaling and virulence for antibiotic development

Whole genome comparisons of serotype 4b and 1/2a strains of the food-borne pathogen Listeria monocytogenes reveal new insights into the core genome components of this species

Identification of anthrax toxin genes in a Bacillus cereus associated with an illness resembling inhalation anthrax

Multiple antimicrobial resistance in plague: an emerging public health risk

The genome sequence of Bacillus cereus ATCC 10987 reveals metabolic adaptations and a large plasmid related to Bacillus anthracis pXO1

Visualization of comparative genomic analyses by BLAST score ratio

Escherichia coli global gene expression in urine from women with urinary tract infection

The QseC adrenergic signaling cascade in Enterohemorrhagic E. coli (EHEC)

AB5075, a Highly Virulent Isolate of Acinetobacter baumannii, as a Model Strain for the Evaluation of Pathogenesis and Antimicrobial Treatments.

Complete genome sequence and comparative metabolic profiling of the prototypical enteroaggregative Escherichia coli strain 042

Genomic characterization of enteroaggregative Escherichia coli from children in Mali

Bacillus anthracis comparative genome analysis in support of the Amerithrax investigation

Chemical sensing in mammalian host-bacterial commensal associations

Autotransporter genes pic and tsh are associated with Escherichia coli strains that cause acute pyelonephritis and are expressed during urinary tract infection

Transcriptome of swarming Proteus mirabilis

Quantitative PCR for detection of Shigella improves ascertainment of Shigella burden in children with moderate-to-severe diarrhea in low-income countries

The complete genome sequence of Yersinia pseudotuberculosis IP31758, the causative agent of Far East scarlet-like fever

Genomic comparison of multi-drug resistant invasive and colonizing Acinetobacter baumannii isolated from diverse human body sites reveals genomic plasticity

Defining the phylogenomics of Shigella species: a pathway to diagnostics

Exploiting the explosion of information associated with whole genome sequencing to tackle Shiga toxin-producing Escherichia coli (STEC) in global food production systems.

Whole-genome sequences of Bacillus subtilis and close relatives

Genomic diversity of EPEC associated with clinical presentations of differing severity

Phylogenetically typing bacterial strains from partial SNP genotypes observed from direct sequencing of clinical specimen metagenomic data.

Standardized metadata for human pathogen/vector genomic sequences

A transcriptome study of the QseEF two-component system and the QseG membrane protein in enterohaemorrhagic Escherichia coli O157 : H7.

Shigella flexneri effectors OspE1 and OspE2 mediate induced adherence to the colonic epithelium following bile salts exposure

Circleator: flexible circular visualization of genome-associated data with BioPerl and SVG.

A divergent Pseudomonas aeruginosa palmitoyltransferase essential for cystic fibrosis-specific lipid A.

Analysis of Shigella flexneri Resistance, Biofilm Formation, and Transcriptional Profile in Response to Bile Salts.

Comparative Genomics Provides Insight into the Diversity of the Attaching and Effacing Escherichia coli Virulence Plasmids

Investigating the Relatedness of Enteroinvasive Escherichia coli to Other E. coli and Shigella Isolates by Using Comparative Genomics.

Bacterial Factors Associated with Lethal Outcome of Enteropathogenic Escherichia coli Infection: Genomic Case-Control Studies

Characterization of Klebsiella sp. Strain 10982, a Colonizer of Humans That Contains Novel Antibiotic Resistance Alleles and Exhibits Genetic Similarities to Plant and Clinical Klebsiella Isolates

Comparative genomics and transcriptomics of Escherichia coli isolates carrying virulence factors of both enteropathogenic and enterotoxigenic E. coli

Diversity among blaKPC-containing plasmids in Escherichia coli and other bacterial species isolated from the same patients

Insights into enterotoxigenic Escherichia coli diversity in Bangladesh utilizing genomic epidemiology

The role of genomics in the identification, prediction, and prevention of biological threats.

Targeted enrichment outperforms other enrichment techniques and enables more multi-species RNA-Seq analyses

Genomic and Phenotypic Diversity among Ten Laboratory Isolates of Pseudomonas aeruginosa PAO1

Best practices on the differential expression analysis of multi-species RNA-seq

Responses of the Human Gut Escherichia coli Population to Pathogen and Antibiotic Disturbances

Comparative genomic analysis and molecular examination of the diversity of enterotoxigenic Escherichia coli isolates from Chile

Genome diversity ofShigella boydii

Draft Genome Sequences of Nine Enteropathogenic Escherichia coli Strains from Kenya

A Novel Proteome Microarray Discriminates Targets of Human Antibody Reactivity following Oral Vaccination and Experimental Challenge