Eutrophication-resistant phytoplankton communities in freshwater ecosystems have a novel lipid potential to contribute to the development of tropical regions. The question that arises due to the unsustainability of their eutrophicated waters is how the recognition of the lipids of the resident phytoplankton progresses. Our aim was to provide an overview of the pico-, nano- and micro-cellular lipids of phytoplankton with a focus on eutrophic tropical freshwater ecosystems. Using the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) framework, global and Latin American publications were retrieved based on search equations and specific questions. In total, 490 studies were reviewed. The inclusion criteria, in order, were (1) peer-reviewed articles, (2) articles investigating phytoplankton strains or communities from any aquatic environment, (3) articles on freshwater ecosystems, and (4) research in tropical climates. The contribution of freshwater phytoplankton was high and discontinuous, with a representation of 63% in the 21st century. Freshwater themes were resolved in the ecological context with phytoplankton or algae keywords, while microalgae were targeted using resource use keywords. On the tropical scale, technological themes on lipid microalgae were related to fatty acids, biofuels, biodiesel, antioxidants, and recombinant DNA. It is concluded that studies of the lipid composition of phytoplankton communities are delayed in the case of eutrophic tropical freshwater ecosystems.