Frank M. Aarestrup

Research interests

Publications

• ResFinder – an open online resource for identification of antimicrobial resistance genes in next-generation sequencing data and prediction of phenotypes from genotypes

  Microbial Genomics · 2022 · 10.1099/mgen.0.000748

• Detection of mobile genetic elements associated with antibiotic resistance in Salmonella enterica using a newly developed web tool: MobileElementFinder

  Journal of Antimicrobial Chemotherapy · 2020 · 10.1093/jac/dkaa390

• ResFinder 4.0 for predictions of phenotypes from genotypes

  Journal of Antimicrobial Chemotherapy · 2020 · https://doi.org/10.1093/jac/dkaa345

• Using Genomics to Track Global Antimicrobial Resistance

  Frontiers in Public Health · 2019 · 10.3389/fpubh.2019.00242

• Rapid and precise alignment of raw reads against redundant databases with KMA

  BMC Bioinformatics · 2018 · 10.1186/s12859-018-2336-6

• PointFinder: a novel web tool for WGS-based detection of antimicrobial resistance associated with chromosomal point mutations in bacterial pathogens

  Journal of Antimicrobial Chemotherapy · 2017 · 10.1093/jac/dkx217

• The role of whole genome sequencing in antimicrobial susceptibility testing of bacteria: report from the EUCAST Subcommittee

  Clinical Microbiology and Infection · 2016 · 10.1016/j.cmi.2016.11.012

• Rapid and Easy In Silico Serotyping of Escherichia coli Isolates by Use of Whole-Genome Sequencing Data

  Journal of Clinical Microbiology · 2015 · 10.1128/jcm.00008-15

• Benchmarking of Methods for Genomic Taxonomy

  Journal of Clinical Microbiology · 2014 · 10.1128/jcm.02981-13

• Real-Time Whole-Genome Sequencing for Routine Typing, Surveillance, and Outbreak Detection of Verotoxigenic Escherichia coli

  Journal of Clinical Microbiology · 2014 · https://doi.org/10.1128/jcm.03617-13

• In Silico Detection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing

  Antimicrobial Agents and Chemotherapy · 2014 · https://doi.org/10.1128/aac.02412-14

• Solving the Problem of Comparing Whole Bacterial Genomes across Different Sequencing Platforms

  PLoS ONE · 2014 · 10.1371/journal.pone.0104984

• Rapid Whole-Genome Sequencing for Detection and Characterization of Microorganisms Directly from Clinical Samples

  Journal of Clinical Microbiology · 2013 · https://doi.org/10.1128/jcm.02452-13

• PathogenFinder - Distinguishing Friend from Foe Using Bacterial Whole Genome Sequence Data

  PLoS ONE · 2013 · 10.1371/journal.pone.0077302

• Identification of acquired antimicrobial resistance genes

  Journal of Antimicrobial Chemotherapy · 2012 · https://doi.org/10.1093/jac/dks261

• Staphylococcus aureus CC398: Host Adaptation and Emergence of Methicillin Resistance in Livestock

  mBio · 2012 · 10.1128/mbio.00305-11

• Multilocus Sequence Typing of Total-Genome-Sequenced Bacteria

  Journal of Clinical Microbiology · 2012 · https://doi.org/10.1128/jcm.06094-11

• Global Monitoring of Salmonella Serovar Distribution from the World Health Organization Global Foodborne Infections Network Country Data Bank: Results of Quality Assured Laboratories from 2001 to 2007

  Foodborne Pathogens and Disease · 2011 · 10.1089/fpd.2010.0787

• qnrD , a Novel Gene Conferring Transferable Quinolone Resistance in Salmonella enterica Serovar Kentucky and Bovismorbificans Strains of Human Origin

  Antimicrobial Agents and Chemotherapy · 2008 · 10.1128/aac.00997-08

• Resistance in bacteria of the food chain: epidemiology and control strategies

  Expert Review of Anti-infective Therapy · 2008 · 10.1586/14787210.6.5.733

• Quinolone and Macrolide Resistance in Campylobacter jejuni and C. coli: Resistance Mechanisms and Trends in Human Isolates

  Emerging infectious diseases · 2001 · 10.3201/eid0701.010104

• Effect of Abolishment of the Use of Antimicrobial Agents for Growth Promotion on Occurrence of Antimicrobial Resistance in Fecal Enterococci from Food Animals in Denmark

  Antimicrobial Agents and Chemotherapy · 2001 · 10.1128/aac.45.7.2054-2059.2001

• Comparison of antimicrobial resistance phenotypes and resistance genes in Enterococcus faecalis and Enterococcus faecium from humans in the community, broilers, and pigs in Denmark

  Diagnostic Microbiology and Infectious Disease · 2000 · 10.1016/s0732-8893(00)00130-9

• An Outbreak of Multidrug-Resistant, Quinolone-ResistantSalmonella entericaSerotype Typhimurium DT104

  New England Journal of Medicine · 1999 · 10.1056/nejm199911043411902

• Avoparcin used as a growth promoter is associated with the occurrence of vancomycin-resistant Enterococcus faecium on Danish poultry and pig farms

  Preventive Veterinary Medicine · 1997 · 10.1016/s0167-5877(96)01119-1

Current projects

No projects listed.