Due to a significant decrease of fossil fuel resources, but also due to their significant negative impact of the environment, production of biofuels attracts more and more attention every day. Nowadays, biodiesel imposes as an alternative fuel instead of fossil diesel. Biodiesel is environmentally acceptable because of its biodegradability, non-toxicity and low emission of greenhouse gasses as well as due to the emission of other substances that harm the environment. The most common process of biodiesel production is transesterification of different oils with methanol in a batch reactor using acids or bases as catalysts. Due to high costs and low reaction rates in these processes, possibilities of applying some other technologies and catalysts are being explored. Significant process improvements are predicted by implementation of transesterification using lipase as a catalyst. Application of lipase in the transesterification process, comparing to acids and bases as catalysts, results with mild reaction conditions and less by-product. Likewise, advantages of continuous production of biodiesel are being more and more noticed whereby application of microreactors results with many advantages compared to conventional, batch processes. More intensive mass and heat transfer in microreactors, which is a result of high surface-to-volume ratio of the reactor, leads to higher reaction rate and consequently to considerable savings in energy and raw material consumption. High surface-tovolume ratio is a result of the reactor's structure, regarding the fact that a microreactor is build-up of microchannels, whose dimensions are 10 μm – 500 μm, whereby microchannels are made by cutting on a solid plate. Flow in microchannels is mostly laminar due to their small diameter which consequently allows more precise regulation of the process. In this paper biodiesel was produced by enzymatic transesterification of edible sunflower oil with methanol whereby a commercial and purified (produced by fermentation on squash cake) enzyme lipase from Thermomyces lanuginosus was used as a catalyst. Synthesis was carried out in a microreactor with two inlets where one process flow was methanol and the second one was an emulsion made of oil, enzyme and emulsifier suspended in a water buffer or deep eutectic solvent. The highest conversion of 28,85 % for residence time τ = 16,4 min was obtained in the system with an emulsion of oil and commercial enzyme suspended in a water buffer. This system could be considered the best choice for future biodiesel production process optimization.