Horizontal gene transfer (HGT) is a key driver in the evolution of bacterial genomes. The acquisition of genes mediated by HGT may enable bacteria to adapt to ever-changing environmental conditions. Long-term application of antibiotics in intensive agriculture is associated with the dissemination of antibiotic resistance genes among bacteria with the consequences causing public health concern. Commensal farm-animal-associated gut microbiota are considered the reservoir of the resistance genes. Therefore, in this study, we identified known and not-yet characterized mobilized genes originating from chicken and porcine fecal samples using our innovative pipeline followed by network analysis to provide appropriate visualization to support proper interpretation.

Biomedical Center Faculty of Medicine Charles University Pilsen Czech Republic

Central European Institute of Technology University of Veterinary Sciences Brno Brno Czech Republic

Department of Biology and Wildlife Diseases Faculty of Veterinary Hygiene and Ecology University of Veterinary Sciences Brno Brno Czech Republic

Department of Biology University of Oxford Oxford United Kingdom

Department of Biomedical Engineering Faculty of Electrical Engineering and Communication Brno University of Technology Brno Czech Republic

Department of Clinical Microbiology and Immunology Institute of Laboratory Medicine The University Hospital Brno Brno Czech Republic

Department of Physiology Faculty of Medicine Masaryk University Brno Czech Republic

Molecular Systems Biology Department of Functional and Evolutionary Ecology University of Vienna Vienna Austria

Veterinary Research Institute Brno Czech Republic

Vienna Metabolomics Center University of Vienna Vienna Austria

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