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Ben Pascoe

Senior Research Fellow (Biological sciences; Health sciences)

Oxford, UK

Publications

  • Assessing the pathogenic potential of less common Salmonella enterica serotypes circulating in the Thai pork production chain
  • Molecular epidemiology and comparative genomics of Campylobacter concisus strains from saliva, faeces and gut mucosal biopsies in inflammatory bowel disease
  • Molecular evidence for cross boundary spread of Salmonella spp. in meat sold at retail markets in the middle Mekong basin area
  • A GWAS on Helicobacter pylori strains points to genetic variants associated with gastric cancer risk
  • The emergence of plasmid-borne cfr-mediated linezolid resistant-staphylococci in Vietnam
  • Stress-resistance associated with multi-host transmission and enhanced biofilm formation at 42 °C among hyper-aerotolerant generalist Campylobacter jejuni
  • Epistasis analysis uncovers hidden antibiotic resistance-associated fitness costs hampering the evolution of MRSA
  • Genomic epidemiology of the commercially important pathogen Renibacterium salmoninarum within the Chilean salmon industry
  • Prevalence of faecal carriage of extended-spectrum β-lactamase (ESBL)-producing Escherichia coli in veterinary hospital staff and students
  • Genomic epidemiology of clinical Campylobacter spp. at a single health trust site
  • Genome-wide identification of host-segregating SNPs for source attribution of clinical Campylobacter coli isolates
  • Stereoselective Bacterial Metabolism of Antibiotics in Environmental Bacteria – A Novel Biochemical Workflow
  • Local accessory gene sharing drives lineage-specific acquisition of antimicrobial resistance in Egyptian Campylobacter spp.
  • Quantifying bacterial evolution in the wild: A birthday problem for Campylobacter lineages
  • Disease-associated genotypes of the commensal skin bacterium Staphylococcus epidermidis
  • Whole-genome characterisation of multidrug resistant monophasic variants of Salmonella Typhimurium from pig production in Thailand
  • Multiple hypervirulent methicillin-sensitiveStaphylococcus aureuslineages contribute towards poor patient outcomes in orthopedic device-related infections
  • A 500-year tale of co-evolution, adaptation, and virulence: Helicobacter pylori in the Americas
  • Genomic epidemiology of Campylobacter jejuni associated with asymptomatic pediatric infection in the Peruvian Amazon
  • Quantifying bacterial evolution in the wild: a birthday problem for Campylobacter lineages
  • Occurrence and sequence type of antimicrobial resistant Salmonella spp. circulating in antibiotic-free organic pig farms of northern-Thailand
  • Multiple clones of colistin-resistant Salmonella enterica carrying mcr-1 plasmids in meat products and patients in Northern Thailand
  • Host ecology regulates interspecies recombination in bacteria of the genus Campylobacter
  • Non-serotype 2 isolates from healthy pigs are a potential zoonotic reservoir of Streptococcus suis genetic diversity and antimicrobial resistance
  • Domestication of Campylobacter jejuni NCTC 11168
  • Hermes: an ensemble machine learning architecture for protein secondary structure prediction
  • Core genome sequence analysis to characterize Salmonella enterica serovar Rissen ST469 from a swine production chain
  • Identification of Streptococcus suis carriage in healthy pigs in Chiang Mai, Thailand
  • Stereoselective metabolism of chloramphenicol by bacteria isolated from wastewater, and the importance of stereochemistry in environmental risk assessments for antibiotics
  • Genomic epidemiology of Campylobacter jejuni associated with asymptomatic pediatric infection in the Peruvian Amazon
  • Agricultural intensification and the evolution of host specialism in the enteric pathogen Campylobacter jejuni
  • High-resolution sweep metagenomics using fast probabilistic inference [version 2; peer review: 2 approved]
  • Local accessory gene sharing among Egyptian Campylobacter potentially promotes the spread of antimicrobial resistance
  • Signatures of selection in core and accessory genomes indicate different ecological drivers of diversification among Bacillus cereus clades
  • Repeated out-of-Africa expansions of Helicobacter pylori driven by replacement of deleterious mutations
  • Occurrence and sequence type of antimicrobial resistant Salmonella spp. circulating in antibiotic-free organic pig farms of northern-Thailand
  • Genome-based analysis of infrequent Salmonella serotypes through the Thai pork production chain
  • Characterisation of Salmonella enterica clones carrying mcr-1 plasmids in meat products and patients in Northern Thailand using long read sequencing
  • Genome evolution and the emergence of pathogenicity in avian Escherichia coli
  • Spatiotemporal Investigation of Antibiotic Resistance in the Urban Water Cycle Influenced by Environmental and Anthropogenic Activity
  • Genome-wide association study of signature genetic alterations among pseudomonas aeruginosa cystic fibrosis isolates
  • Campylobacter jejuni genotypes are associated with post-infection irritable bowel syndrome in humans
  • A two-hit epistasis model prevents core genome disharmony in recombining bacteria
  • Oral and gut microbiome biomarkers of susceptibility to respiratory tract infection in adults: a longitudinal cohort feasibility study
  • Host ecology regulates interspecies recombination in bacteria of the genus Campylobacter
  • Domestication of Campylobacter jejuni NCTC 11168
  • Gene pool transmission of multidrug resistance among Campylobacter from livestock, sewage and human disease
  • Genetic Diversity of Composite Enterotoxigenic Staphylococcus epidermidis Pathogenicity Islands
  • High-resolution sweep metagenomics using fast probabilistic inference
  • Author Correction: Genome evolution and the emergence of pathogenicity in avian Escherichia coli
  • High-resolution sweep metagenomics using fast probabilistic inference
  • Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork
  • Local genes for local bacteria: evidence of allopatry in the genomes of transatlantic Campylobacter populations
  • From Escherich to the Escherichia coli genome
  • Comparative genomic survey of Bacillus cereus sensu stricto isolates from the dairy production chain in Brazil
  • Lineage-specific plasmid acquisition and the evolution of specialized pathogens in Bacillus thuringiensis and the Bacillus cereus group
  • Convergent Amino Acid Signatures in Polyphyletic Campylobacter jejuni Subpopulations Suggest Human Niche Tropism
  • Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork
  • Local genes for local bacteria: evidence of allopatry in the genomes of transatlantic Campylobacter populations
  • Genomic structure and insertion sites of Helicobacter pylori prophages from various geographical origins
  • The Potential of Isolation Source to Predict Colonization in Avian Hosts
  • Genome-wide identification of host-segregating epidemiological markers for source attribution in Campylobacter jejuni
  • Genome Comparison of Erythromycin Resistant Campylobacter from Turkeys Identifies Hosts and Pathways for Horizontal Spread of erm(B) Genes
  • Bayesian identification of bacterial strains from sequencing data
  • Recombination-mediated host-adaptation by avian Staphylococcus aureus
  • A comparative genomics study of Staphylococcus epidermidis from orthopedic device-related infections correlated with patient outcome
  • Genome-wide association of functional traits linked with Campylobacter jejuni survival from farm to fork
  • Local genes for local bacteria
  • Correction
  • High resolution whole genome multilocus sequence typing (wgMLST) schemes for Salmonella enterica Weltevreden epidemiologic investigations
  • Hidden antibiotic resistance fitness costs revealed by GWAS-based epistasis analysis
  • Genetic and chemical differentiation of Campylobacter coli and Campylobacter jejuni lipooligosaccharide pathways
  • Genetic features of livestock-associated Staphylococcus aureus ST9 isolates from Chinese pigs that carry the lsa(E) gene for quinupristin/dalfopristin resistance
  • Rapid host switching in generalist Campylobacter strains erodes the signal for tracing human infections
  • DNA extraction: Campylobacter
  • Dormant Cells of Staphylococcus aureus Are Resuscitated by Spent Culture Supernatant.
  • The zinc-responsive regulator Zur controls expression of the coelibactin gene cluster in Streptomyces coelicolor
  • Biofilm Morphotypes and Population Structure among Staphylococcus epidermidis from Commensal and Clinical Samples.
  • Local genes for local bacteria: evidence of allopatry in the genomes of transatlantic Campylobacter populations
  • Can crab shells protect roses from blackspot?
  • Genomes of Helicobacter pylori prophages
  • Can crab shells protect roses from blackspot?
  • A reference pan-genome approach to comparative bacterial genomics: identification of novel epidemiological markers in pathogenic campylobacter.
  • Staphylococcus epidermidis in Biomaterial-Associated Infections
  • Evidence of land-sea transfer of the zoonotic pathogen Campylobacter to a wildlife marine sentinel species.
  • Ecological Overlap and Horizontal Gene Transfer in Staphylococcus aureus and Staphylococcus epidermidis.
  • Persistent Staphylococcus aureus Isolates from Two Independent Cases of Bacteremia Display Increased Bacterial Fitness and Novel Immune Evasion Phenotypes.
  • Progressive genome-wide introgression in agricultural Campylobacter coli
  • Mechanisms of Staphylococcus epidermidis biofilm formation in different types of biomaterial-related infections
  • Zinc-responsive regulation of alternative ribosomal protein genes in Streptomyces coelicolor involves zur and σR
  • Draft Genome Sequence of an Enterobacter Species Associated with Illnesses and Powdered Infant Formula.
  • Enhanced biofilm formation and multi-host transmission evolve from divergent genetic backgrounds in Campylobacter jejuni
  • Large sequence diversity within biosynthesis locus and common biochemical features of Campylobacter coli lipooligosaccharides.
  • Combined Analysis of Variation in Core, Accessory and Regulatory Genome Regions Provides a Super-Resolution View into the Evolution of Bacterial Populations
  • Does Biofilm Formation Aid Colonization and Infection in Campylobacter?
  • Genetic diversity and variation in antimicrobial-resistance determinants of non-serotype 2 Streptococcus suis isolates from healthy pigs.
  • Genome-based analysis of infrequent Salmonella serotypes through the Thai pork production chain.
  • Colistin resistance and resistance determinants are mobile among Salmonella enterica isolates from diseased and healthy pigs in Thailand
  • Contrasting genes conferring short and long-term biofilm adaptation in Listeria
  • Investigation of swine caecal microbiomes in the northern region of Thailand
  • Urbanization spreads antimicrobial resistant enteric pathogens in wild bird microbiomes
  • Oral and gut microbial biomarkers of susceptibility to respiratory tract infection in adults: A feasibility study
  • Lineage‐specific plasmid acquisition and the evolution of specialized pathogens in Bacillus thuringiensis and the Bacillus cereus group
  • Evidence of potential Campylobacter jejuni zooanthroponosis in captive macaque populations.
  • Contrasting genes conferring short- and long-term biofilm adaptation in Listeria.
  • Author Correction: Repeated out-of-Africa expansions of Helicobacter pylori driven by replacement of deleterious mutations.
  • C-SOP-201: Genomic DNA Quantification using a Qubit Fluorometer v1
  • Genomic tailoring of autogenous poultry vaccines to reduce Campylobacter from farm to fork
  • Commercial farmed swine harbour a variety of pathogenic bacteria and antimicrobial resistance genes
  • Genomic resistant determinants of multidrug resistant Campylobacter spp. isolates in Peru
  • Recombination-mediated dissemination of Methicillin-resistant S. aureus clonal complex 1 in the Egyptian health care settings
  • The Helicobacter pylori Genome Project: insights into H. pylori population structure from analysis of a worldwide collection of complete genomes

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Co-workers & collaborators

Evangelos Mourkas

Evangelos Mourkas

Jessica Calland

Jessica Calland

Ben Pascoe's public data