A5035218131- Salmonella and Campylobacter epidemiology
- Pharmaceutical and Antibiotic Environmental Impacts
- Antibiotic Resistance in Bacteria
- Gut microbiota and health
- Listeria monocytogenes in Food Safety
- Microbial infections and disease research
- Food Safety and Hygiene
- Animal Nutrition and Physiology
- Health Systems, Economic Evaluations, Quality of Life
- Aquaculture disease management and microbiota
- Animal Disease Management and Epidemiology
- Bacteriophages and microbial interactions
- Antibiotic Use and Resistance
- Nail Diseases and Treatments
- Medical Imaging Techniques and Applications
- Bacillus and Francisella bacterial research
- Census and Population Estimation
- Gene expression and cancer classification
- Cystic Fibrosis Research Advances
- SARS-CoV-2 detection and testing
- Vector-Borne Animal Diseases
- Hepatitis Viruses Studies and Epidemiology
- Antimicrobial Peptides and Activities
- Evolution and Genetic Dynamics
- Identification and Quantification in Food
Technical University of Denmark
2015-2025
Utrecht University
2024
University of Copenhagen
2024
Center for Genomic Science
2019
Food Research Institute
2012-2015
Background Diarrhoeal diseases are major contributors to the global burden of disease, particularly in children. However, comprehensive estimates incidence and mortality due specific aetiologies diarrhoeal not available. The objective this study is provide regional caused by nine pathogens that commonly transmitted through foods. Methods Findings We abstracted data from systematic reviews and, depending on overall rates country, applied either a national estimate approach or modified Child...
This Opinion considers the application of whole genome sequencing (WGS) and metagenomics for outbreak investigation, source attribution risk assessment food-borne pathogens. WGS offers highest level bacterial strain discrimination investigation source-attribution as well potential more precise hazard identification, thereby facilitating targeted management. improves linking sporadic cases associated with different food products geographical regions to a point can facilitate epidemiological...
Abstract The emergence of antimicrobial resistance (AMR) is one the biggest health threats globally. In addition, use drugs in humans and livestock considered an important driver resistance. commensal microbiota, especially intestinal has been shown to have role AMR. Mobile genetic elements (MGEs) also play a central facilitating acquisition spread AMR genes. We isolated Escherichia coli (n = 627) from fecal samples respectively 25 poultry, 28 swine, 15 veal calf herds 6 European countries...
Previous studies in food-producing animals have shown associations between antimicrobial use (AMU) and resistance (AMR) specifically isolated bacterial species. Multi-country data are scarce only describe between-country differences. Here we investigate the pig faecal mobile resistome characteristics at farm-level across Europe.A cross-sectional study was conducted among 176 conventional farms from nine European countries. Twenty-five samples fattening pigs were pooled per farm acquired...
To determine associations between farm- and flock-level antimicrobial usage (AMU), farm biosecurity status the abundance of faecal resistance genes (ARGs) on broiler farms.In cross-sectional pan-European EFFORT study, conventional farms were visited faeces, AMU information records collected. The resistomes pooled samples determined by metagenomic analysis for 176 farms. A meta-analysis approach was used to relate total class-specific ARGs (expressed as fragments per kb reference million...
Metagenomics can unveil the genetic content of total microbiota in different environments, such as food products and guts humans livestock. It is therefore considered great potential to investigate transmission foodborne hazards part source-attribution studies. Source-attribution antimicrobial resistance (AMR) has traditionally relied on pathogen isolation, while metagenomics allows investigating full span AMR determinants. In this study, we hypothesized that relative abundance fecal...
Antimicrobial resistance (AMR) is one of the top public health threats nowadays. Among most important AMR pathogens, Escherichia coli resistant to extended spectrum cephalosporins (ESC-EC) a perfect example One Health problem due its global distribution in animal, human, and environmental sources phenotype, derived from carriage plasmid-borne extended-spectrum AmpC β-lactamases, which limits choice effective antimicrobial therapies. The epidemiology ESC-EC infection complex as result...
Extended-spectrum cephalosporin-resistant Escherichia coli (ESC-EC) poses a significant public health concern, with its presence increasingly detected in healthy humans and various animal species. This study explores the transmission dynamic of ESC-EC within Danish population as well impact range food sources. We developed compartmental model encompassing farmers, pet owners, general population. Additionally, we applied an established source attribution to estimate contributions different...
ABSTRACT Metagenomic sequencing has proven to be a powerful tool in the monitoring of antimicrobial resistance (AMR). Here, we provide comparative analysis resistome from pigs, poultry, veal calves, turkey, and rainbow trout, for total 538 herds across nine European countries. We calculated effects per-farm management practices usage (AMU) on broilers, calves. also an in-depth study associations between bacterial diversity, AMR abundances as well co-occurrence taxa genes (ARGs) universality...
One Health surveillance of antimicrobial resistance (AMR) depends on a harmonized method for detection AMR. Metagenomics-based offers the possibility to compare resistomes within and between different target populations. Its potential be embedded into policy in future calls timely integrated knowledge dissemination strategy. We developed blended training (e-learning workshop) use metagenomics pathogens The objectives were highlight context surveillance, demonstrate its applicability through...
Antimicrobial resistance (AMR) is a major threat to global health, and it crucial understand the epidemiological aspects in order predict emergence propagation of AMR genes. The aim this study was assess variability medium-term trends within mostly healthy human population single city. We monitored over 36 months (November 2015 November 2018) level city Copenhagen, Denmark, by taking bi-weekly sewage samples from inlets three main water treatment plants, extracting DNA, performing...
Abstract Objectives Slaughterhouse staff is occupationally exposed to antimicrobial resistant bacteria. Studies reported high resistance gene (ARG) abundances in slaughter pigs. This cross-sectional study investigated occupational exposure tetracycline (tetW) and macrolide (ermB) genes assessed determinants for faecal tetW ermB carriage among pig slaughterhouse workers. Methods During 2015–2016, 483 samples personal questionnaires were collected from workers a Dutch abattoir, together with...
BackgroundIn Denmark, antimicrobial resistance (AMR) in pigs has been monitored since 1995 by phenotypic approaches using the same indicator bacteria. Emerging methodologies, such as metagenomics, may allow novel surveillance ways.AimThis study aimed to assess relevance of bacteria (Escherichia coli and Enterococcus faecalis) for AMR pigs, utility metagenomics.MethodsWe collated existing data on use (AMU) from Danish programme performed metagenomics sequencing caecal samples that had...
Aquaculture located in urban river estuaries, where other anthropogenic activities may occur, has an impact on and be affected by the environment they are inserted, namely exchange of antimicrobial resistance genes. The latter ultimately, through food chain, represent a source genes to human resistome. In exploratory study presence aquaculture sediments two machine learning models were applied predict 34 resistome observations oysters gilt-head sea bream, estuaries Sado Lima Rivers Aveiro...
Antimicrobial resistance (AMR) is considered a One Health (OH) challenge, ideally demanding concerted efforts from the animal, human and environmental side. DANMAP, Danish Integrated Resistance Monitoring Research Program, monitoring AMR antimicrobial use in animals humans. OH-EpiCap an evaluation tool, developed to address essential elements OH surveillance systems, such as dimensions of organization, operational activities impact activities. We aimed evaluate DANMAP using hereby assessed...
EFFORT group Haitske Graveland, Alieda van Essen, Bruno Gonzalez-Zorn, Gabriel Moyano, Pascal Sanders, Claire Chauvin, Julie David, Antonio Battisti, Andrea Caprioli, Jeroen Dewulf, Thomas Blaha, Katharina Wadepohl, Maximiliane Brandt, Dariusz Wasyl, Magdalena Skarzyñska, Zajac, Hristo Daskalov, Helmut W Saatkamp, D.C. Stärk. Abstract Antimicrobial resistance (AMR) in bacteria and associated human morbidity mortality is increasing. Use of antimicrobials livestock selects for AMR that can...
The source of a foodborne disease outbreak (FBO) is often difficult to identify, especially in the early phase where interventions would be most efficient. In addition, data on FBOs are mostly scattered different formats either national databases and reports or within pathogen-specific regional reporting networks, both which only accessible selected number individuals. Here, we developed an international, open, shared searchable catalogue past – Global Food-source Identifier (GFI). GFI was...