The project aims to elucidate the role of soil and plant microorganisms in enhancing wheat sustainability, nutritional quality, immunogenicity, and the composition of bioactive compounds in wheat plants. Two distinct case studies were implemented to examine the impact of agricultural practices (both ecological and conventional, including irrigation and non-irrigation conditions) as well as edaphoclimatic factors and wheat genetic varieties on soil and plant microbiota. The objective is to correlate these microbial communities and the soil-plant interactions with the nutritional, immunogenic, and bioactive composition of wheat, develop a bioinformatic tool to help select the wheat variety according to the proper edaphoclimatic conditions for specific nutritional outcome and select the microbes with best performance to design microbial-based food. Wheat samples from 2023 campaign were collected, and the characterization of soil and plant microbiota for both case studies have been completed. Additionally, the analysis of the nutritional composition concerning the impact of agricultural practices has been finalized. The fully assessment of the influence of edaphoclimatic and genetic conditions on nutritional composition is still ongoing. The quantification of total immunogenic proteins has been accomplished for both case studies, and the characterization of bioactive compounds is currently in progress. Twenty fermented food prototypes (including bevereges, yogurt-like and cheese-like products) are intended to be obtained by selecting the best microbial performance according to nutritional composition, bioactive compounds and food immunogenicity. To date, seven wheat-based fermented beverages, two yogurt-type products, and one cheese-type product were designed. The bioactive compounds and gluten quantification was already performed on the beverages while the additional food is being currently analysed. In addition, WHEATBIOME is working to define the methodological procedure for assessing the environmental and economic performance of its novel products. Survey questionnaires to food system actors are being implemented in Hungary, Netherlands and Spain to evaluate European food system's ability to provide healthy and sustainable food and feed, identify barriers and enablers for adopting sustainable practices at the EU level, and determine the desired characteristics of novel wheat by-product-based fermented food and feed products.