Generating 3D omics landscapes, achieving reconstructions of intestinal host-microbiota ecosystems.

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Understanding the interplay between animals and microorganisms associated with them has been recognised as an essential topic by the European Commission for improving and optimising animal health, welfare, and production worldwide.

We are developing a framework to generate and analyse 3D’omic data that will unveil microbe-microbe and animal-microbe interactions that have so far remained undetected. Using poultry and swine production systems, the project analyses the effects of different factors, including animal development, diet, exposure to pathogens, and management practices on the 3D omics landscapes. This innovative research paves the way to improved animal breeding practices, development of microbiota- and host-tailored feeds, and animal health treatments, increasing production efficiency and animal welfare.