Microalgae-based bioproducts remain expensive mainly due to microalgae cultivation, harvesting and downstream processing costs. Nonetheless, microalgae are a high potential source of several biofuels, biofertilizers, and bioproducts (e.g. carbohydrates, long-chain fatty acids, pigments and proteins), which can provide important nutritional, cosmetical, pharmaceutical and health benefits. In addition, they are able to perform wastewater bioremediation and carbon dioxide mitigation. This not only contributes to a more sustainable microalgae production, with environmental benefits, but offers cost savings on the whole process. Hence, from these small cellular factories, a large source of compounds and products can be obtained, providing a real microalgal-based biorefinery. This type of approach is crucial for the full application and commercialization of microalgae in a large range of products and industries, with added benefits for bio-economy and society in general.This chapter addresses the potential transformation of microalgal biomass into a wide range of marketable products, presenting examples of experimental microalgae-based biorefineries grown in an autotrophic mode at a laboratory scale.