In one aspect, the invention provides methods for manufacturing, processing and recovering organic matter from a biomass, e.g., a biofluid or biosemisolid comprising a protein and a lipid, for example, from a dairy-based material. In one aspect, the invention provides methods for encapsulating oils with proteins for, e.g., making foods, food supplements or additives and feeds or feed supplements or additives. Compositions made by processes of this invention can be used for foods, food supplements or additives, feeds or feed supplements or additives, and/or biofuels.