Background African animal trypanosomosis (AAT), transmitted by tsetse flies, is arguably the main disease constraint to integrated crop-livestock agriculture in sub-Saharan Africa, and African Heads of State and Government have adopted a resolution to rid the continent of this scourge. In order to sustainably reduce or eliminate the burden of AAT, a progressive and evidence-based approach is need, which must hinge on harmonized, spatially-explicit information on the occurrence of AAT and its vectors.MethodsA digital repository containing tsetse and AAT data collected in Burkina Faso between 1990 and 2019 was assembled. Data were collected either in the framework of control activities or for research purposes. Data were systematically verified, harmonized, georeferenced and integrated into a database (PostgreSQL). Entomological data on tsetse were mapped at the level of individual monitoring trap. When this was not possible, mapping done was at the level of site or location. Epidemiological data on AAT were mapped at the level of location/village.ResultsEntomological data showed that presence of four tsetse species in Burkina Faso. Glossina tachinoides was the most widespread and abundant species (56.35% of the catches), present from the eastern to the western part of the country. Glossina palpalis gambiensis was the second most abundant species (35.56%), and it was mainly found in the West. Glossina morsitans submorsitans was found at lower densities (6.11%), with a patchy distribution in the southern parts of the country. One only cluster of G. medicorum was detected (less than 0.1%), located in the Southwest. For the AAT component, data for 54,948 animal blood samples were assembled from 218 geographic locations. The samples were tested with a variety of diagnostic methods. AAT was found in all surveyed departments, including the tsetse-free areas in the North. Trypanosoma vivax and T. congolense infections were the dominant species 6.11±21.56% and 5.19±18.97% respectively), and to a lesser extend T. brucei infections (0.00±0.10%).Conclusions The atlas provides a synoptic view of the available information on tsetse and AAT distribution in Burkina Faso. Data are very scanty for most of the tsetse-free areas in the northern part of the country. Despite this limitation, this study generated a robust tool to aid the targeting of future surveillance and control activities. The development of the atlas also strengthened the collaboration between the different institutions involved in tsetse and AAT research and control in Burkina Faso, which will be crucial for future updates and the sustainability of the initiative.