Aquaculture is important for Spain due the decline in fisheries and the growing demand for protein from aquatic origin. However, newly developed biotechnologic tools (-omics technologies) are not yet being fully applied in this field in Spain. Therefore, the Aquagenomics project will focus on the development of new genomic tools and their application to experiments proposed by some of the most relevant Spanish research groups in this field to investigate the molecular basis of: i) disease resistance, ii) growth and iii) reproduction. The species selected for these studies are the turbot (Scophthalmus maximus), sea bream (Sparus aurata) and sea bass (Dicentrarchus labrax), the most important in current marine aquaculture in Spain.