Worldwide, bees are the most important group of animal pollinators. The ecosystem service they provide is vital in natural areas and croplands, and the taxonomic and functional diversity associated with bees is vital in understanding ecosystem functioning ensuring biodiversity conservation, food security and human livelihoods. A dataset of bees from mountainous areas of Carajás National Forest (eastern Amazon) and Nova Lima (Atlantic Forest) is presented here. It is a compilation of sampling efforts from 1983 to 2018 through the accession of data stored in museum collections. In total, 222 and 144 bee species were recorded in Carajás and Nova Lima, respectively. This represents the most robust dataset of Brazilian bees including species traits (body size, flight range, distribution, crop pollination, sociality and nesting) of 328 species. This dataset contributes to advances in the knowledge of the functional trait ecology of wild bees and can benefit further studies that analyze the response of wild bees to land use and climate changes, and its effects on the provision of crop pollination services.