Search filters

List of works by Frank Møller Aarestrup

.Analysis of the contribution of bacteriophage ST64B to in vitro virulence traits of Salmonella enterica serovar Typhimurium

scientific article published on 9 December 2013

A Bacterial Analysis Platform: An Integrated System for Analysing Bacterial Whole Genome Sequencing Data for Clinical Diagnostics and Surveillance

scientific article

A Livestock-Associated, Multidrug-Resistant, Methicillin-Resistant Staphylococcus aureus Clonal Complex 97 Lineage Spreading in Dairy Cattle and Pigs in Italy.

scientific article

A Peek into the Plasmidome of Global Sewage

scientific article published on 29 June 2021

A classification system for plasmids from enterococci and other Gram-positive bacteria

scientific article published on 29 October 2009

A sampling and metagenomic sequencing-based methodology for monitoring antimicrobial resistance in swine herds

scientific article published on 8 November 2016

Abundance and diversity of the faecal resistome in slaughter pigs and broilers in nine European countries

scientific article published on 23 July 2018

Abundance and diversity of the fecal resistome in slaughter pigs and broilers in nine European countries

scholarly article published 28 September 2017

Adhesion of Escherichia coli under flow conditions reveals potential novel effects of FimH mutations.

scientific article published on 5 November 2016

An Assessment of Different Genomic Approaches for Inferring Phylogeny of Listeria monocytogenes.

scientific article published on 29 November 2017

An outbreak of multidrug-resistant, quinolone-resistant Salmonella enterica serotype typhimurium DT104.

scientific article published in November 1999

Analytical Profiling of Airplane Wastewater - a New Matrix for Mapping Worldwide Patterns of Drug Use and Abuse

article by Marie Mardal et al published 1 June 2017 in Scandinavian Journal of Forensic Science

Antimicrobial Growth Promoter Ban and Resistance to Macrolides and Vancomycin in Enterococci from Pigs ⬇️

scientific article published on November 1, 2001

Antimicrobial Susceptibility of Listeria monocytogenes from Food Products

scientific article published on 01 January 2007

Antimicrobial drug resistance of Salmonella isolates from meat and humans, Denmark

scientific article published on April 2007

Antimicrobial resistance and molecular epidemiology of Salmonella Rissen from animals, food products, and patients in Thailand and Denmark

scientific article published on October 2008

Antimicrobial resistance in Salmonella spp. recovered from patients admitted to six different hospitals in Tehran, Iran from 2007 to 2008.

scientific article published on 4 February 2012

Antimicrobial resistance in swine production

scientific article

Antimicrobial resistance of thermophilic Campylobacter

scientific article

Antimicrobial resistance of zoonotic and commensal bacteria in Europe: the missing link between consumption and resistance in veterinary medicine

scientific article published on 03 February 2014

Antimicrobial susceptibilities, phage types, and molecular characterization of Salmonella enterica serovar Enteritidis from chickens and chicken meat in turkey

scientific article published in April 2009

Antimicrobial susceptibility and occurrence of resistance genes among Salmonella enterica serovar Weltevreden from different countries

scientific article

Antimicrobial susceptibility and presence of resistance genes in staphylococci from poultry

scientific article

Antimicrobial susceptibility and serovars of Salmonella from chickens and humans in Ibadan, Nigeria ⬇️

scientific article published on September 3, 2010

Antimicrobial susceptibility and tetracycline resistance determinant genotyping of Gallibacterium anatis

scientific article

Antimicrobial susceptibility of Haemophilus parasuis and Histophilus somni from pigs and cattle in Denmark

scientific article

Antimicrobial susceptibility patterns of thermophilic Campylobacter spp. from humans, pigs, cattle, and broilers in Denmark ⬇️

scientific article published on October 1, 1997

Antimicrobial-resistant Shigella infections from Iran: an overlooked problem?

scientific article

Antimicrobial-resistant faecal Escherichia coli in wild mammals in central Europe: multiresistant Escherichia coli producing extended-spectrum beta-lactamases in wild boars

scientific article published on 30 September 2009

Antimicrobials in livestock

BMJ article

Arrangements of Mobile Genetic Elements among Virotype E Subpopulation of <i>Escherichia coli</i> Sequence Type 131 Strains with High Antimicrobial Resistance and Virulence Gene Content

scientific article published on 25 August 2021

Association between antimicrobial resistance in Escherichia coli isolates from food animals and blood stream isolates from humans in Europe: an ecological study

scientific article

Association between phage types and antimicrobial resistance among bovine Staphylococcus aureus from 10 countries

article

Association between the consumption of antimicrobial agents in animal husbandry and the occurrence of resistant bacteria among food animals.

scientific article

Association between the use of avilamycin for growth promotion and the occurrence of resistance among Enterococcus faecium from broilers: epidemiological study and changes over time

scientific article

Associations between antimicrobial use and the faecal resistome on broiler farms from nine European countries

scholarly article by Roosmarijn E C Luiken et al published 1 September 2019 in Journal of Antimicrobial Chemotherapy

Associations between the use of antimicrobial agents for growth promotion and the occurrence of resistance among Enterococcus faecium from broilers and pigs in Denmark, Finland, and Norway

scientific article published in January 2000

Associations of Streptococcus suis serotype 2 ribotype profiles with clinical disease and antimicrobial resistance

scientific article

Audouin's gull, a potential vehicle of an extended spectrum β-lactamase producing Salmonella Agona

scientific article published on 4 December 2014

Author Correction: Abundance and diversity of the faecal resistome in slaughter pigs and broilers in nine European countries

scientific article published on 01 October 2018

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

scientific article

Bacterial whole genome-based phylogeny: construction of a new benchmarking dataset and assessment of some existing methods

scientific article

Benchmarking of methods for genomic taxonomy

scientific article published on 26 February 2014

Benchmarking of methods for identification of antimicrobial resistance genes in bacterial whole genome data.

scientific article

Benchtop Whole-Genome Sequencing for Identification of Nosocomial Outbreaks in Tanzania

scientific article published on 22 February 2016

Biocide Susceptibility of Staphylococcus aureus CC398 and CC30 Isolates from Pigs and Identification of the Biocide Resistance Genes, qacG and qacC.

scientific article

Broiler chickens, broiler chicken meat, pigs and pork as sources of ExPEC related virulence genes and resistance in Escherichia coli isolates from community-dwelling humans and UTI patients

scientific article

Campylobacter concisus: an evaluation of certain phenotypic and genotypic characteristics.

scientific article published in April 2005

Ceftriaxone use in a tertiary care hospital in Kilimanjaro, Tanzania: A need for a hospital antibiotic stewardship programme

scientific article published on 05 August 2019

Changes in the use of antimicrobials and the effects on productivity of swine farms in Denmark

scientific article published in July 2010

Characterisation of integrons and antibiotic resistance genes in Danish multiresistant Salmonella enterica Typhimurium DT104

article

Characterisation of integrons and antibiotic resistance genes in Danish multiresistant Salmonella enterica Typhimurium DT104.

scientific article published on March 1998

Characterisation of integrons and antibiotic resistance genes in Danish multiresistant Salmonella enterica Typhimurium DT104.

scientific article published in December 1997

Characterisation of recently emerged multiple antibiotic‐resistant Salmonella enterica serovar typhimurium DT104 and other multiresistant phage types from Danish pig herds ⬇️

scientific article published on July 25, 1998

Characterisation of streptomycin resistance determinants in Danish isolates of Salmonella Typhimurium

scientific article

Characterization and Genetic Variation of Vibrio cholerae Isolated from Clinical and Environmental Sources in Thailand

scientific article

Characterization of Salmonella occurring at high prevalence in a population of the land iguana Conolophus subcristatus in Galápagos Islands, Ecuador

scientific article

Characterization of Staphylococcus simulans strains isolated from cases of bovine mastitis

scientific article published on 01 April 1999

Characterization of antimicrobial resistance in Salmonella enterica food and animal isolates from Colombia: identification of a qnrB19-mediated quinolone resistance marker in two novel serovars

scientific article published on 30 September 2010

Characterization of extended-spectrum β-lactamase (ESBL)-producing Escherichia coli obtained from Danish pigs, pig farmers and their families from farms with high or no consumption of third- or fourth-generation cephalosporins

scientific article published on 7 June 2014

Characterization of isolates of Salmonella enterica serovar Stanley, a serovar endemic to Asia and associated with travel

scientific article published on 11 January 2012

Clonal diversity of Staphylococcus aureus originating from the small ruminants goats and sheep

scientific article published on 21 October 2011

Clonal spread of tetracycline-resistant Salmonella typhimurium in Danish dairy herds

scientific article published in March 1997

Cloning and occurrence of czrC, a gene conferring cadmium and zinc resistance in methicillin-resistant Staphylococcus aureus CC398 isolates

scientific article

Comment on: Causal regulations vs. political will: why human zoonotic infections increase despite precautionary bans on animal antibiotics

article published in 2009

Comment on: Gross national income and antibiotic resistance in invasive isolates: analysis of the top-ranked antibiotic-resistant bacteria on the 2017 WHO priority list

scientific article published on 23 January 2020

Commentary: Benefits and risks of antimicrobial use in food-producing animals

scientific article published on 07 February 2017

Comparative Evaluation of the Antimicrobial Activity of Different Antimicrobial Peptides against a Range of Pathogenic Bacteria

scientific article published on 11 December 2015

Comparative genomics of quinolone‐resistant and susceptible Campylobacter jejuni of poultry origin from major poultry producing European countries (GENCAMP)

Comparative genomics of toxigenic and non-toxigenic Staphylococcus hyicus

scientific article

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

scientific article published in June 2000

Comparison of enterococcal populations in animals, humans, and the environment--a European study

scientific article published on December 2003

Comparison of two agar dilution methods and three agar diffusion methods, including the Etest, for antibiotic susceptibility testing of thermophilic Campylobacter species

scientific article published in September 1999

Consolidating and Exploring Antibiotic Resistance Gene Data Resources

scientific article

Copper resistance in Enterococcus faecium, mediated by the tcrB gene, is selected by supplementation of pig feed with copper sulfate

scientific article published in September 2006

Correction: MGmapper: Reference based mapping and taxonomy annotation of metagenomics sequence reads

scientific article published on 12 June 2017

Correction: PathogenFinder - Distinguishing Friend from Foe Using Bacterial Whole Genome Sequence Data.

scientific article

Cross-Border Transmission of Salmonella Choleraesuis var. Kunzendorf in European Pigs and Wild Boar: Infection, Genetics, and Evolution

article

Danish integrated antimicrobial resistance monitoring and research program

scientific article

Decreased susceptibility to zinc chloride is associated with methicillin resistant Staphylococcus aureus CC398 in Danish swine

scientific article published on 31 October 2009

Design of a system for monitoring antimicrobial resistance in pathogenic, zoonotic and indicator bacteria from food animals

scientific article

Detection of linezolid resistance due to the optrA gene in Enterococcus faecalis from poultry meat from the American continent (Colombia).

scientific article published on 20 December 2016

Detection of mcr-1 encoding plasmid-mediated colistin-resistant Escherichia coli isolates from human bloodstream infection and imported chicken meat, Denmark 2015.

scientific article published on December 2015

Detection of the satA gene and transferability of virginiamycin resistance in Enterococcus faecium from food-animals

scientific article published in November 1998

Developing a framework to assess the costeffectiveness of COMPARE - a global platform for the exchange of sequence-based pathogen data

scientific article published on April 2017

Development of a miniaturised microarray-based assay for the rapid identification of antimicrobial resistance genes in Gram-negative bacteria

scientific article published on 19 February 2008

Development of a standardized susceptibility test for campylobacter with quality-control ranges for ciprofloxacin, doxycycline, erythromycin, gentamicin, and meropenem.

scientific article published in January 2004

Development of penicillin resistance among Staphylococcus aureus isolated from bovine mastitis in Denmark and other countries

scientific article published in January 1998

Direct whole-genome sequencing of Plasmodium falciparum specimens from dried erythrocyte spots

scientific article published on 23 February 2018

Dissection of the antimicrobial and hemolytic activity of Cap18: Generation of Cap18 derivatives with enhanced specificity.

scientific article published on 31 May 2018

Diversity and evolution of blaZ from Staphylococcus aureus and coagulase-negative staphylococci

article

Diversity and stability of plasmids from glycopeptide-resistant Enterococcus faecium (GRE) isolated from pigs in Denmark

scientific article published in January 2005

Diversity of the tetracycline resistance gene tet(M) and identification of Tn916- and Tn5801-like (Tn6014) transposons in Staphylococcus aureus from humans and animals

scientific article published on 16 June 2009

Drivers and Dynamics of Methicillin-Resistant Livestock-Associated Staphylococcus aureus CC398 in Pigs and Humans in Denmark

scientific article published on 13 November 2018

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

scientific article

Effect of subinhibitory concentrations of four commonly used biocides on the conjugative transfer of Tn916 in Bacillus subtilis

scientific article published on 03 October 2013

Effect of tylosin used as a growth promoter on the occurrence of macrolide-resistant enterococci and staphylococci in pigs

scientific article

Effects of the antimicrobial growth promoter tylosin on subclinical infection of pigs with Salmonella enterica serotype Typhimurium.

scientific article

Emergence of livestock-associated methicillin-resistant Staphylococcus aureus bloodstream infections in Denmark

scientific article published on 30 May 2017

Emergence of methicillin resistance predates the clinical use of antibiotics

scientific article published on 05 January 2022

Emergence of multidrug-resistant salmonella concord infections in Europe and the United States in children adopted from Ethiopia, 2003-2007.

scientific article published in September 2009

Emergence of resistance to fluoroquinolones among bacteria causing infections in food animals in Denmark

scientific article published in January 2000

Epidemiological investigation of Salmonella enterica serovar Kedougou in Thailand

scientific article published on 30 October 2010

Epidemiology of Danish Aeromonas salmonicida subsp. salmonicida in Fish Farms Using Whole Genome Sequencing.

scientific article published on 5 December 2017

Erratum to: Evaluating next-generation sequencing for direct clinical diagnostics in diarrhoeal disease.

scientific article

Escherichia coli isolates from broiler chicken meat, broiler chickens, pork, and pigs share phylogroups and antimicrobial resistance with community-dwelling humans and patients with urinary tract infection

scientific article published on May 2010

Establishing streptomycin epidemiological cut-off values for Salmonella and Escherichia coli

scientific article published on 12 July 2011

Estimating variation within the genes and inferring the phylogeny of 186 sequenced diverse Escherichia coli genomes

scientific article

Evaluating next-generation sequencing for direct clinical diagnostics in diarrhoeal disease.

scientific article

Evaluating the usefulness of next-generation sequencing for herb authentication

scientific article published on 20 October 2021

Evaluation of Methods for the Concentration and Extraction of Viruses from Sewage in the Context of Metagenomic Sequencing

scientific article

Evaluation of ceftiofur and cefquinome for phenotypic detection of methicillin resistance in Staphylococcus aureus using disk diffusion testing and MIC-determinations.

scientific article published on 10 July 2009

Evaluation of eight different cephalosporins for detection of cephalosporin resistance in Salmonella enterica and Escherichia coli

scientific article published on 12 July 2010

Evaluation of phenotypic and genotypic methods for epidemiological typing of Staphylococcus aureus isolates from bovine mastitis in Denmark

scientific article published in July 1995

Evaluation of quinolones for use in detection of determinants of acquired quinolone resistance, including the new transmissible resistance mechanisms qnrA, qnrB, qnrS, and aac(6')Ib-cr, in Escherichia coli and Salmonella enterica and determinations o

scientific article published on 01 July 2009

Evaluation of whole genome sequencing for outbreak detection of Salmonella enterica

scientific article published on 04 February 2014

Evidence-based policy for controlling antimicrobial resistance in the food chain in Denmark

article

Expansion of a plasmid classification system for Gram-positive bacteria and determination of the diversity of plasmids in Staphylococcus aureus strains of human, animal, and food origins

scientific article

Extended-Spectrum -Lactamases, Food, and Cephalosporin Use in Food Animals

scientific article published in 2007

External quality assurance system (EQAS) for identification of mastitis pathogens in Denmark from 2006 to 2011.

scientific article published on 27 November 2012

External quality assurance system for antibiotic resistance in bacteria of animal origin in Europe (ARBAO-II), 2003.

scientific article published on 30 January 2006

Extremely drug-resistant Salmonella enterica serovar Senftenberg infections in patients in Zambia

scientific article published on 17 October 2012

Fatal Septicemia Linked to Transmission of MRSA Clonal Complex 398 in Hospital and Nursing Home, Denmark

scientific article published on May 2016

First description of an oxyimino-cephalosporin-resistant, ESBL-carrying Escherichia coli isolated from meat sold in Denmark

scientific article published on 27 February 2006

First description of blaCTX-M-1-carrying Escherichia coli isolates in Danish primary food production

scientific article published on 5 April 2006

First description of meticillin-resistant Staphylococcus aureus (MRSA) CC30 and CC398 from swine in Portugal

scientific article published on 8 April 2009

First detection of plasmid-mediated quinolone resistance (qnrA and qnrS) in Escherichia coli strains isolated from humans in Scandinavia.

scientific article published on 6 February 2007

Fluoroquinolone resistance in Salmonella: a web discussion

scientific article

Genome Sequences of Three Highly Copper-Resistant Salmonella enterica subsp. I Serovar Typhimurium Strains Isolated from Pigs in Denmark

scientific article

Genome Sequences of Two Copper-Resistant Escherichia coli Strains Isolated from Copper-Fed Pigs

scientific article

Genome sequences of copper resistant and sensitive Enterococcus faecalis strains isolated from copper-fed pigs in Denmark

scientific article published on 8 July 2015

Genome-wide high-throughput screening to investigate essential genes involved in methicillin-resistant Staphylococcus aureus Sequence Type 398 survival

scientific article

Genomic dissection of travel-associated extended-spectrum-beta-lactamase-producing Salmonella enterica serovar typhi isolates originating from the Philippines: a one-off occurrence or a threat to effective treatment of typhoid fever?

scientific article

Genomic signature of multidrug-resistant Salmonella enterica serovar typhi isolates related to a massive outbreak in Zambia between 2010 and 2012

scientific article

Genomic variation in Salmonella enterica core genes for epidemiological typing

scientific article

Genomics of an emerging clone of Salmonella serovar Typhimurium ST313 from Nigeria and the Democratic Republic of Congo

scientific article published on 15 October 2013

Genomics-Based Identification of Microorganisms in Human Ocular Body Fluid

scientific article

Genotyping using whole-genome sequencing is a realistic alternative to surveillance based on phenotypic antimicrobial susceptibility testing

scientific article

Global Distribution and Diversity of Prevalent Sewage Water Plasmidomes

scientific article published in 2022

Global Distribution of <i>mcr</i> Gene Variants in 214K Metagenomic Samples

scientific article published on 28 March 2022

Global Genomic Epidemiology of Salmonella enterica Serovar Typhimurium DT104.

scientific article

Global Microbial Identifier

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.

scientific article

Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage

scientific article published on 08 March 2019

Global phylogeography and ancient evolution of the widespread human gut virus crAssphage

scientific article published on 08 July 2019

Glycopeptide resistance in Enterococcus faecium from broilers and pigs following discontinued use of avoparcin

scientific article

Glycopeptide susceptibility among Danish Enterococcus faecium and Enterococcus faecalis isolates of animal and human origin and PCR identification of genes within the VanA cluster

scientific article published on August 1996

Harmonization of antimicrobial susceptibility testing among veterinary diagnostic laboratories in the five Nordic countries

scientific article published in January 2003

Heterogeneity among methicillin-resistant Staphylococcus aureus from Italian pig finishing holdings

scientific article published on 20 October 2009

Heterologous expression of glycopeptide resistance vanHAX gene clusters from soil bacteria in Enterococcus faecalis

scientific article published on 13 February 2006

High throughput resistance profiling of Plasmodium falciparum infections based on custom dual indexing and Illumina next generation sequencing-technology

scientific article

Hospital Epidemiology of Methicillin-Resistant Staphylococcus aureus in a Tertiary Care Hospital in Moshi, Tanzania, as Determined by Whole Genome Sequencing

scientific article published on 2 January 2018

Host Resistance, Genomics and Population Dynamics in a Enteritidis and Phage System

scholarly article by Angela Victoria Holguín et al published 22 February 2019 in Viruses

Human deaths and third-generation cephalosporin use in poultry, Europe

scientific article published on August 2013

IS21-558 insertion sequences are involved in the mobility of the multiresistance gene cfr.

scientific article published on 4 December 2006

IS6100-mediated genetic rearrangement within the complex class 1 integron In104 of the Salmonella genomic island 1.

scientific article published on 18 May 2010

Identification and Antimicrobial Resistance of Bacteria Isolated from Probiotic Products Used in Shrimp Culture

scientific article published on 6 July 2015

Identification of Tn5397-like and Tn916-like transposons and diversity of the tetracycline resistance gene tet(M) in enterococci from humans, pigs and poultry

scientific article published on 24 March 2006

Identification of a Pseudomonas aeruginosa co-producing NDM-1, VIM-5 and VIM-6 metallo-β-lactamases in Denmark using whole-genome sequencing

scientific article published on 5 December 2014

Identification of a Tn1546-like (type 2) element in vancomycin-resistant Enterococcus faecium isolated from hospitalized patients in Japan

scientific article published on March 2001

Identification of acquired antimicrobial resistance genes

scientific article published on 10 July 2012

Impact of Sample Type and DNA Isolation Procedure on Genomic Inference of Microbiome Composition

scientific article

Impact of Sample Type and DNA Isolation Procedure on Genomic Inference of Microbiome Composition

article

Improved Resistance Prediction in Mycobacterium tuberculosis by Better Handling of Insertions and Deletions, Premature Stop Codons, and Filtering of Non-informative Sites

scientific article published on 31 October 2019

In silico detection and typing of plasmids using PlasmidFinder and plasmid multilocus sequence typing

scientific article

In silico prediction of human pathogenicity in the γ-proteobacteria ⬇️

scientific article

In vitro susceptibility testing of fluoroquinolone activity against Salmonella: recent changes to CLSI standards

scientific article published on 02 July 2012

Incidence of high-level evernimicin resistance in Enterococcus faecium among food animals and humans

scientific article published on September 2002

Increasing transmission of antibiotic resistance from animals to humans

scientific article published on September 5, 2011

Indications and patterns of therapeutic use of antimicrobial agents in the Danish pig production from 2002 to 2008.

scientific article published on 12 May 2011

Integrating Genome-based Informatics to Modernize Global Disease Monitoring, Information Sharing, and Response ⬇️

scientific article published on November 1, 2012

International collaborative study on the occurrence of plasmid-mediated quinolone resistance in Salmonella enterica and Escherichia coli isolated from animals, humans, food and the environment in 13 European countries

scientific article published on 9 March 2011

International spread of an epidemic population of Salmonella enterica serotype Kentucky ST198 resistant to ciprofloxacin.

scientific article published on 2 August 2011

International spread of bla(CMY-2)-mediated cephalosporin resistance in a multiresistant Salmonella enterica serovar Heidelberg isolate stemming from the importation of a boar by Denmark from Canada

scientific article published in May 2004

International spread of multidrug-resistant Salmonella Schwarzengrund in food products

scientific article published on May 2007

Investigating Salmonella Eko from Various Sources in Nigeria by Whole Genome Sequencing to Identify the Source of Human Infections

scientific article

Is it time to change fluoroquinolone breakpoints for Salmonella spp.?

scientific article published on February 2003

Is the Evolution of Salmonella enterica subsp. enterica Linked to Restriction-Modification Systems?

scientific article published on May 2016

Isolation of vancomycin resistant Enterococcus faecium from food

scientific article published on 01 March 1997

Lack of staphylococcal enterotoxin production among strains of Staphylococcus aureus from bovine mastitis in Denmark.

scientific article published in January 1995

Large scale automated phylogenomic analysis of bacterial isolates and the Evergreen Online platform

scientific article published on 20 March 2020

Large scale automated phylogenomical analysis of bacterial whole-genome isolates and the Evergreen platform

Letter to the Editor: Macrolide Resistance in Campylobacter coli of Animal Origin in Denmark

scientific article published in April 2001

Library Preparation and Sequencing Platform Introduce Bias in Metagenomic-Based Characterizations of Microbiomes

scientific article published on 27 April 2022

Library preparation and sequencing platform introduce bias in metagenomics characterisation of microbial communities

article

Livestock origin for a human pandemic clone of community-associated methicillin-resistant Staphylococcus aureus

scientific article

Livestock-Associated Methicillin Resistant and Methicillin Susceptible Staphylococcus aureus Sequence Type (CC)1 in European Farmed Animals: High Genetic Relatedness of Isolates from Italian Cattle Herds and Humans

scientific article (publication date: 2015)

MGmapper: Reference based mapping and taxonomy annotation of metagenomics sequence reads

scientific article

Macrolide resistance in Campylobacter coli of animal origin in Denmark

scientific article published on January 2001

Megaphages infect Prevotella and variants are widespread in gut microbiomes

scientific article published on 28 January 2019

Meta-analysis of proportion estimates of Extended-Spectrum-Beta-Lactamase-producing Enterobacteriaceae in East Africa hospitals

scientific article

Meta-genomic analysis of toilet waste from long distance flights; a step towards global surveillance of infectious diseases and antimicrobial resistance

scientific article published on 10 July 2015

Metagenomic analysis of viruses in toilet waste from long distance flights-A new procedure for global infectious disease surveillance

scientific article published in PLoS ONE

Metagenomics analysis of bacteriophages and antimicrobial resistance from global urban sewage

scientific article published on 15 January 2021

Metaphylogenetic analysis of global sewage reveals that bacterial strains associated with human disease show less degree of geographic clustering

scientific article published on 20 February 2020

Microbiologic and clinical features of Salmonella species isolated from bacteremic children in eastern Democratic Republic of Congo

scientific article published in June 2010

Microbiota long-term dynamics and prediction of acute graft-versus-host disease in pediatric allogeneic stem cell transplantation

scientific article published on 28 June 2021

Molecular characterisation of multidrug-resistant Salmonella enterica serovar Typhimurium isolates from Gomel region, Belarus.

scientific article published on 13 August 2007

Molecular characterization and antimicrobial susceptibility of Salmonella isolates from infections in humans in Henan Province, China

scientific article published on 10 December 2008

Molecular characterization and antimicrobial susceptibility testing of Escherichia coli isolates from patients with urinary tract infections in 20 Chinese hospitals

scientific article

Molecular characterization and occurrence of extended-spectrum beta-lactamase resistance genes among Salmonella enterica serovar Corvallis from Thailand, Bulgaria, and Denmark

scientific article published in January 2006

Molecular characterization of Escherichia coli strains isolated from pigs with edema disease

scientific article published on January 1997

Molecular characterization of extended-spectrum cephalosporinase-producing Salmonella enterica serovar Choleraesuis isolates from patients in Thailand and Denmark

scientific article

Molecular epidemiology of virulence and antimicrobial resistance determinants in Klebsiella pneumoniae from hospitalised patients in Kilimanjaro, Tanzania

scholarly article by Tolbert Sonda et al published 20 July 2018 in European Journal of Clinical Microbiology & Infectious Diseases

Monitoring SARS-CoV-2 Circulation and Diversity through Community Wastewater Sequencing, the Netherlands and Belgium

scientific article published on 01 May 2021

Monitoring of antimicrobial resistance among food animals: principles and limitations.

scientific article published in October 2004

Multidrug resistance among different serotypes of clinical Salmonella isolates in Taiwan

scientific article published on 9 March 2006

Multilocus sequence typing of total-genome-sequenced bacteria

scientific article

Nonhuman Reservoirs of Enterococci

Nucleoside analogues are activated by bacterial deoxyribonucleoside kinases in a species-specific manner

scientific article

Occurrence and characterization of Salmonella Hiduddify from chickens and poultry meat in Nigeria

scientific article published in May 2009

Occurrence and characterization of Salmonella enterica subspecies enterica serovar 9,12:l,v:- strains from Bulgaria, Denmark, and the United States

scientific article published on 8 November 2008

Occurrence of antimicrobial resistance among bacterial pathogens and indicator bacteria in pigs in different European countries from year 2002 - 2004: the ARBAO-II study

scientific article published on 13 June 2008

Occurrence of glycopeptide resistance among Enterococcus faecium isolates from conventional and ecological poultry farms.

scientific article

Occurrence of integrons and antimicrobial resistance genes among Salmonella enterica from Brazil

scientific article published on 16 June 2006

Occurrence of integrons and resistance genes among sulphonamide-resistant Shigella spp. from Brazil

scientific article published on 28 January 2005

Oedema disease caused by O-rough Escherichia coli.

scientific article

Pasteurella multocida septicaemia and pneumonia after chemotherapy in a patient who had no known contact with animals ⬇️

scientific article published on December 2014

Pathogen surveillance in the informal settlement, Kibera, Kenya, using a metagenomics approach

scientific article published on 10 October 2019

PathogenFinder--distinguishing friend from foe using bacterial whole genome sequence data

scientific article

Patterns of infections, aetiological agents and antimicrobial resistance at a tertiary care hospital in northern Tanzania

scientific article published on 10 January 2017

Phage types and antimicrobial resistance among Danish bovine Staphylococcus aureus isolates since the 1950s

scientific article published in December 2003

Pheno- and genotyping of Staphylococcus epidermidis isolated from bovine milk and human skin

scientific article published on 13 March 2006

Phenotypic, proteomic, and genomic characterization of a putative ABC-transporter permease involved in Listeria monocytogenes biofilm formation

scientific article

Pigs as source of methicillin-resistant Staphylococcus aureus CC398 infections in humans, Denmark

scientific article published on September 2008

Plasmid-mediated quinolone resistance determinant qnrS1 detected in Salmonella enterica serovar Corvallis strains isolated in Denmark and Thailand

scientific article published on 16 July 2007

Plasmid-mediated quinolone resistance due to qnrB5 and qnrS1 genes in Salmonella enterica serovars Newport, Hadar and Saintpaul isolated from turkey meat in Denmark

scientific article published on 20 May 2008

PlasmidHostFinder: Prediction of Plasmid Hosts Using Random Forest

scientific article published on 06 April 2022

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

scientific article published in October 2017

Population Genetic Structure of Listeria monocytogenes Strains as Determined by Pulsed-Field Gel Electrophoresis and Multilocus Sequence Typing

scientific article published on 27 May 2016

Population genetics of Vibrio cholerae from Nepal in 2010: evidence on the origin of the Haitian outbreak

scientific article

Predicting effects of changed antimicrobial usage on the abundance of antimicrobial resistance genes in finisher' gut microbiomes

scientific article published on 19 November 2019

Prediction of Acquired Antimicrobial Resistance for Multiple Bacterial Species Using Neural Networks

scientific article published on 21 January 2020

Presence of erm gene classes in gram-positive bacteria of animal and human origin in Denmark

scientific article published in January 1999

Prevalence and Characterization of Cephalosporin Resistance in Nonpathogenic Escherichia coli from Food-Producing Animals Slaughtered in Poland ⬇️

scientific article published on July 1, 2011

Prevalence and antibiotic resistance of Salmonella isolated from a poultry farm and processing plant environment in the State of Kuwait

scientific article published in January 2007

Prevalence and characterization of human Shigella infections in Henan Province, China, in 2006.

scientific article

Prevalence and risk factors for CTX-M gram-negative bacteria in hospitalized patients at a tertiary care hospital in Kilimanjaro, Tanzania

scientific article published on 20 February 2018

Prevalence of antimicrobial resistance among bacterial pathogens isolated from cattle in different European countries: 2002-2004.

scientific article published on 8 July 2008

Prevalence of beta-lactamases among ampicillin-resistant Escherichia coli and Salmonella isolated from food animals in Denmark

scientific article published in January 2004

Prevalence of extended-spectrum cephalosporinase (ESC)-producing Escherichia coli in Danish slaughter pigs and retail meat identified by selective enrichment and association with cephalosporin usage

scientific article published on 29 December 2011

Prevalence of quinolone resistance mechanisms and associations to minimum inhibitory concentrations in quinolone-resistant Escherichia coli isolated from humans and swine in Denmark

scientific article published in June 2008

Priorities for antibiotic resistance surveillance in Europe.

scientific article

Proficiency Testing of Virus Diagnostics Based on Bioinformatics Analysis of Simulated In Silico High-Throughput Sequencing Data Sets

scientific article published on 26 July 2019

Proficiency of WHO Global Foodborne Infections Network External Quality Assurance System Participants in Identification and Susceptibility Testing of Thermotolerant Campylobacter spp. from 2003 to 2012

scientific article published in 2018

Proof of concept: Malaria rapid diagnostic tests and massively parallel sequencing for surveillance of molecular markers of antimalarial resistance in Bissau, Guinea-Bissau during 2014-2017

scholarly article published 29 November 2018

Proof of concept: used malaria rapid diagnostic tests applied for parallel sequencing for surveillance of molecular markers of anti-malarial resistance in Bissau, Guinea-Bissau during 2014-2017

scientific article published on 26 July 2019

Quantification of bioavailable chlortetracycline in pig feces using a bacterial whole-cell biosensor

scientific article

Quinolone and macrolide resistance in Campylobacter jejuni and C. coli: resistance mechanisms and trends in human isolates

scientific article

Quinolone resistance among Salmonella enterica from cattle, broilers, and swine in Denmark

scientific article

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

scientific article published in August 2014

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

scientific article

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

scientific article published on 29 August 2018

Rapid whole-genome sequencing for detection and characterization of microorganisms directly from clinical samples

scientific article published on 30 October 2013

Reads2Type: a web application for rapid microbial taxonomy identification

scientific article published on 25 November 2015

Real-time whole-genome sequencing for routine typing, surveillance, and outbreak detection of verotoxigenic Escherichia coli

scientific article published on 26 February 2014

Reappearance of Salmonella serovar Choleraesuis var. Kunzendorf in Danish pig herds

scientific article published on 27 January 2015

Regulation of the erm(C) gene in Staphylococci from reservoir with different usage of macrolides

scientific article

Relationship between copper, glycopeptide, and macrolide resistance among Enterococcus faecium strains isolated from pigs in Denmark between 1997 and 2003.

scientific article

Reply to "South Asia instead of Nepal may be the origin of the Haitian cholera outbreak strain".

scientific article published on November 2011

Reply to Catry and Threlfall

scientific article published in 2009

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

scientific article published in 2022

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

scientific article published on October 2008

Resistance to antimicrobial agents used for animal therapy in pathogenic-, zoonotic- and indicator bacteria isolated from different food animals in Denmark: a baseline study for the Danish Integrated Antimicrobial Resistance Monitoring Programme (DA

scientific article published in August 1998

Resistant Salmonella virchow in quail products

scientific article published in December 2005

Results of use of WHO Global Salm-Surv external quality assurance system for antimicrobial susceptibility testing of Salmonella isolates from 2000 to 2007.

scientific article

Risk factors and epidemiology of the ten most common Salmonella serovars from patients in Thailand: 2002-2007.

scientific article published in October 2009

SCCmec Type IX Element in Methicillin Resistant Staphylococcusaureusspa Type t337 (CC9) Isolated from Pigs and Pork in Thailand

scientific article published on 22 March 2012

SCCmecFinder, a Web-Based Tool for Typing of Staphylococcal Cassette Chromosome mec in Staphylococcus aureus Using Whole-Genome Sequence Data.

scientific article published in January 2018

Salmonella enterica serovar Typhimurium in Mauritius linked to consumption of marlin mousse.

scientific article

Salmonella lamphun: first isolation of a new Salmonella serovar in Thailand.

scientific article

Salmonella serovars from humans and other sources in Thailand, 1993-2002

scientific article published in January 2004

Selection and persistence of CTX-M-producing Escherichia coli in the intestinal flora of pigs treated with amoxicillin, ceftiofur, or cefquinome.

scientific article published on 21 July 2008

Serological characterization and antimicrobial susceptibility of Streptococcus suis isolates from diagnostic samples in Denmark during 1995 and 1996 ⬇️

scientific article published on February 15, 1998

Sharing Data for Global Infectious Disease Surveillance and Outbreak Detection

scientific article

Shigella from humans in Thailand during 1993 to 2006: spatial-time trends in species and serotype distribution

scientific article published in December 2008

Solving the problem of comparing whole bacterial genomes across different sequencing platforms

scientific article

Spa type distribution in Staphylococcus aureus originating from pigs, cattle and poultry

scientific article published on 26 September 2009

Spatio-temporal analysis of Salmonella surveillance data in Thailand.

scientific article

Specific gut microbiome members are associated with distinct immune markers in allogeneic hematopoietic stem cell transplantation

Specific gut microbiome members are associated with distinct immune markers in pediatric allogeneic hematopoietic stem cell transplantation

scientific article published on 13 September 2019

Spontaneous nisin-resistant Listeria monocytogenes mutants with increased expression of a putative penicillin-binding protein and their sensitivity to various antibiotics.

scientific article published in January 2001

Spread of Staphylococcus aureus resistant to penicillin and tetracycline within and between dairy herds.

scientific article

Standard Sample Storage Conditions Have an Impact on Inferred Microbiome Composition and Antimicrobial Resistance Patterns

scientific article published on 06 October 2021

Staphylococcal and other bacterial species associated with intramammary infections in Danish dairy herds

scientific article published in January 1995

Staphylococcus aureus CC398: host adaptation and emergence of methicillin resistance in livestock

scientific article published on 21 February 2012

Streptogramin resistance among Enterococcus faecium isolated from production animals in Denmark in 1997.

scientific article published in January 2002

Study of methicillin resistant Staphylococcus aureus (MRSA) in Danish pigs at slaughter and in imported retail meat reveals a novel MRSA type in slaughter pigs

scientific article published on 24 December 2011

Surveillance of antimicrobial resistance in bacteria isolated from food animals to antimicrobial growth promoters and related therapeutic agents in Denmark

scientific article

Susceptibility of Clostridium difficile Toward Antimicrobial Agents Used as Feed Additives for Food Animals

scientific article published on 17 October 2010

Susceptibility of Escherichia coli and Enterococcus faecium isolated from pigs and broiler chickens to tetracycline degradation products and distribution of tetracycline resistance determinants in E. coli from food animals

scientific article

Susceptibility of different bacterial species isolated from food animals to copper sulphate, zinc chloride and antimicrobial substances used for disinfection

scientific article

Susceptibility testing of Actinobacillus pleuropneumoniae in Denmark. Evaluation of three different media of MIC-determinations and tablet diffusion tests

scientific article published in February 1999

Sustainable farming: Get pigs off antibiotics

scientific article published on 27 June 2012

Ten years of antimicrobial susceptibility testing of Salmonella from Danish pig farms

scientific article published on 7 May 2008

Tetracycline consumption and occurrence of tetracycline resistance in Salmonella typhimurium phage types from Danish pigs

scientific article

The CGE Tool Box

The COMPARE Data Hubs

The COMPARE Data Hubs

scientific article published on 01 January 2019

The EcoKI type I restriction-modification system in Escherichia coli affects but is not an absolute barrier for conjugation

scientific article

The Lake Chad Basin, an Isolated and Persistent Reservoir of Vibrio cholerae O1: A Genomic Insight into the Outbreak in Cameroon, 2010.

scientific article

The Role of Outer Membrane Proteins and Lipopolysaccharides for the Sensitivity of to Antimicrobial Peptides

scientific article published on 07 September 2018

The antimicrobial resistome in relation to antimicrobial use and biosecurity in pig farming, a metagenome-wide association study in nine European countries

scholarly article by Liese Van Gompel et al published 14 January 2019 in Journal of Antimicrobial Chemotherapy

The antimicrobial resistome in relation to antimicrobial use and biosecurity in pig farming, a metagenome-wide association study in nine European countries

scientific article published in 2019

The association between measurements of antimicrobial use and resistance in the faeces microbiota of finisher batches

scientific article published on 27 June 2017

The attribution of human infections with antimicrobial resistant Salmonella bacteria in Denmark to sources of animal origin

scientific article published in January 2007

The dynamics of Staphylococcus aureus intramammary infection in nine Danish dairy herds

scientific article published in January 2000

The effect of pH and storage on copper speciation and bacterial growth in complex growth media

scientific article published on 31 March 2009

The effects of antibiotic usage in food animals on the development of antimicrobial resistance of importance for humans in Campylobacter and Escherichia coli

scientific article

The first attempt of an active integrated laboratory-based Salmonella surveillance programme in the north-eastern region of Nigeria.

scientific article published on 13 August 2013

The gut microbiome but not the resistome is associated with urogenital schistosomiasis in preschool-aged children

scientific article published on 02 April 2020

The in vitro fitness cost of antimicrobial resistance in Escherichia coli varies with the growth conditions

scientific article published on 22 July 2009

The livestock reservoir for antimicrobial resistance: a personal view on changing patterns of risks, effects of interventions and the way forward

scientific article published on June 2015

The pharmacodynamic effect of amoxicillin and danofloxacin against Salmonella typhimurium in an in-vitro pharmacodynamic model.

scientific article published in June 2000

The rarely reported tet(31) tetracycline resistance determinant is common in Gallibacterium anatis

scientific article published on 18 November 2010

The role of the st313-td gene in virulence of Salmonella Typhimurium ST313.

scientific article published on 03 January 2014

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

scientific article

Towards a European health research and innovation cloud (HRIC)

scientific article published on 19 February 2020

Transfer of antibiotic resistant bacteria from animals to man.

scientific article

Transmission of antimicrobial resistance in the gut microbiome of gregarious cockroaches: the importance of interaction between antibiotic exposed and non-exposed populations

scientific article published in 2024

Trends in antimicrobial susceptibility in relation to antimicrobial usage and presence of resistance genes in Staphylococcus hyicus isolated from exudative epidermitis in pigs

scientific article published in October 2002

Trends in the resistance to antimicrobial agents of Streptococcus suis isolates from Denmark and Sweden

scientific article

Upsurge of infections caused by Salmonella Concord among Ethiopian adoptees in Denmark, 2009.

scientific article published on 10 June 2010

Use of antimicrobial growth promoters in food animals and Enterococcus faecium resistance to therapeutic antimicrobial drugs in Europe

scientific article

Using Genomics to Track Global Antimicrobial Resistance

scientific article published on 04 September 2019

Using WGS to identify antibiotic resistance genes and predict antimicrobial resistance phenotypes in MDR Acinetobacter baumannii in Tanzania

article

Using sewage for surveillance of antimicrobial resistance

scientific article

Validation of the register-based lifetime antimicrobial usage measurement for finisher batches based on comparison with recorded antimicrobial usage at farm level

scientific article published on 7 February 2018

Vancomycin-resistant Enterococcus faecalis isolates from a Danish patient and two healthy human volunteers are possibly related to isolates from imported turkey meat

scientific article published on 26 June 2008

Veterinary drug usage and antimicrobial resistance in bacteria of animal origin

scientific article

Voluntary ban on cephalosporin use in Danish pig production has effectively reduced extended-spectrum cephalosporinase-producing Escherichia coli in slaughter pigs

scientific article published on 5 November 2012

WHO Global Salm-Surv external quality assurance system for serotyping of Salmonella isolates from 2000 to 2007.

scientific article published on July 2009

WHO global salm-surv external quality assurance system (EQAS): an important step toward improving the quality of Salmonella serotyping and antimicrobial susceptibility testing worldwide

scientific article published in January 2002

Whole genome sequencing reveals high clonal diversity of Escherichia coli isolated from patients in a tertiary care hospital in Moshi, Tanzania.

scientific article

World Health Organization ranking of antimicrobials according to their importance in human medicine: A critical step for developing risk management strategies for the use of antimicrobials in food production animals

scientific article

Worldwide human mitochondrial haplogroup distribution from urban sewage

scientific article published on 12 August 2019

Zinc resistance of Staphylococcus aureus of animal origin is strongly associated with methicillin resistance

scientific article published on 23 February 2011

beta-Lactamases among extended-spectrum beta-lactamase (ESBL)-resistant Salmonella from poultry, poultry products and human patients in The Netherlands

scientific article published on 7 June 2005

dfrA25, a novel trimethoprim resistance gene from Salmonella Agona isolated from a human urine sample in Brazil

scientific article published on 15 September 2006

qnrD, a novel gene conferring transferable quinolone resistance in Salmonella enterica serovar Kentucky and Bovismorbificans strains of human origin

scientific article

snpTree--a web-server to identify and construct SNP trees from whole genome sequence data

scientific article

tcrB, a gene conferring transferable copper resistance in Enterococcus faecium: occurrence, transferability, and linkage to macrolide and glycopeptide resistance

scientific article published on May 2002

Paulina is supported by:

About Paulina

Help