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A review of the situation of bio-fuels in the world, mainly of biodiesel is made. A comparison among the different raw materials for the synthesis of biodiesel is done and it is emphasized in the production of biodiesel from microalgae. The different fresh and salt water micro-algae in its lipid content and productivity are compared. A review of the process of biosynthesis of lipids in microalgae and how to improve the production of lipids in microalgae is shown. It is discussed the importance of the genetic manipulation to highly lipid-producing microalgae (example: Botryrococuus braunni, Nannochloropsis sp, Noechlorisoleobundans and Nitschia sp.). A study of the advantages and disadvantages of the different systems of cultivation of microalgae is also made. Finally, it is shown a perspective of biofuels from microalgae. Among the main challenges to overcome to produce biodiesel from microalgae are: the cost of production of biomass, which involves the optimization of media, selection and manipulation of strains and photobioreactors design. The process of separation of biomass, the extraction of oils and by-products, the optimization of the process of transesterification, purification and use of by-products must also be considered.