Tackling AMR in interconnected humans, soil and livestock

In this study, we collected samples from a poultry meat farm and its connected slaughterhouse in China. We collected samples targeting workers and their households, chickens, carcasses, and soil. Samples were taken over two independent production cycles. DNA extracted from samples was subjected to metagenomic sequencing to obtain the genomic sequence of all bacteria in the microbiome of each sample. The sequences were annotated to obtain the gene content for each sample including the presence of antibiotic resistance genes (ARGs), then analysed using a machine learning (ML) based approach.