The development of chemical libraries in the Latin American region started a few years ago. They are focused on natural products, containing initially between 196 and 485 (El Salvador and Panama databases) plant metabolites, but have been enriched with the inclusion of metabolites from fungi, bacteria, and marine organisms, highlighting the BIODIFACQUIM and NUBBE databases developed at universities in Mexico and Brazil. . Because of the wide range of chemotypes in these compound libraries, they have a high structural diversity and molecular complexity. They have been evaluated through chemoinformatics studies and have a high potential for usefulness in drug discovery for emerging and re-emerging diseases affecting the population of Latin America.