The Amerindian yam (Dioscorea trifida) is a food plant native to the Amazon region. Several local varieties are cultivated by traditional family farmers for consumption and local trade. However, socioeconomic processes may be causing species genetic erosion. Knowledge about species sexual reproduction is essential for its conservation and genetic improvement. The objective of this study was to observe the floral phenology, to assess the germination and dormancy of seeds, to conduct controlled pollinations and to select hybrid plants of D. trifida with agronomic potential. Seed dormancy was confirmed and was broken by after-ripening at 28 oC and 80% RH. We carried out controlled pollinations between local landraces and cultivated the resulting hybrid plants in the field. The new genotypes showed high phenotypic variability and tubers with new characteristics, which permitted the selection of genotypes with agronomic potential for further studies. The results contribute to the conservation of agrobiodiversity and genetic improvement for added value of Amazonian native food plants.