The One Health concept is based on the close interconnection of human health, animals, agricultural and environmental ecosystems. The interactions between these dimensions are evident through examples such as zoonotic diseases, and the emerging spread of antibiotic resistance. A key factor linking human and animal health with environmental, agricultural, and biotechnological systems is their microbiome. The exchange of cellular organisms, viruses, plasmids, transposons, and genes between different microbiomes leads to (i) alterations in microbiome composition and function within a receiving system, (ii) the introduction of pathogenic species and genes, and (iii) the transfer of antibiotic resistance genes. In relation to the latter, globally, in 2019 alone, deaths related to antimicrobial resistance were estimated at 4.95 million . Conversely, controlling microbiome composition holds transformative potential for healthcare and biotechnological applications. Identifying microbial effectors, such as virulence factors, toxins, antibiotics, non-ribosomal peptides (NRP)s, and viruses from various environments, is crucial for precisely managing microbial communities .