Global warming and the increase in organic waste from agro-industries create a major problem for the environment. In this sense, microbial fuel cells (MFC) have great potential for the generation of bioelectricity by using organic waste as fuel. This research produced low-cost MFC by using zinc and copper electrodes and taking blueberry waste as fuel. A peak current and voltage of 1.130 ± 0.018 mA and 1.127 ± 0.096 V, respectively, were generated. The pH levels were acid, with peak conductivity values of 233. 94 ± 0.345 mS/cm and the degrees Brix were descending from the first day. The maximum power density was 3.155 ± 0.24 W/cm2 at 374.4 mA/cm2 current density, and Cándida boidinii was identified by means of molecular biology and bioinformatics techniques. This research gives a new way to generate electricity with this type of waste, generating added value for the companies in this area and helping to reduce global warming.