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Exploring host - gut interactions in major food systems

The production of animals for human consumption can be optimised by modulating animal-associated gut microbiomes. These gut microbiomes can be manipulated through the use of feed additives such as prebiotics and probiotics.

HoloFood was a Horizon 2020 funded project that used a holistic approach to improve the efficiency of food production systems by deciphering the biomolecular and physiological processes triggered by incorporating feed additives and novel sustainable feeds in farmed animals. 

HoloFood ended in June 2023. But the resulting resources are freely available! See below.

HoloFood Resources

Here you find an overview of the main outcomes of the HoloFood project.
The resources are freely available to utilise.

The practical guide to holo-omics is a compilation of methodological procedures to generate, analyse and integrate holo-omic data, i.e., multi-omic data jointly generated from hosts and associated microbial communities such as those used for the HoloFood project.


Computational workflows used in the processing of HoloFood datasets.

Data Portal

The HoloFood Data Portal is a novel database, web resource, and federating Application Programming Interface (API) providing access to all of the project’s archived biomolecular datasets.

Training Course

Materials and presentations from the HoloFood training course held in September 2022. Organised by EMBL-EBI with trainers from UCPH, NTNU, and EHU/UPV. The course covers the generation and application of large-scale holo-omic data sets, such as those produced within the HoloFood project.

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This project has received funding from the European Unionʼs Horizon 2020 research and innovation programme under grant agreement No 817729.