The vomeronasal sensory epithelium of mammals contains apical and basal cell populations expressing different G proteins and putative pheromone receptors, which project, respectively, to the anterior and posterior divisions of the accessory olfactory bulb (AOB). In order to analyse whether these segregated pathways are preserved in the connections between the AOB and the amygdala, conjugated dextran-amines were iontophoretically injected into the anterior and posterior divisions of the AOB. We found that efferent projections from both divisions essentially overlap throughout the vomeronasal recipient amygdala. In the medial amygdaloid complex, both divisions project to lamina 1A of layer 1 of the anterodorsal, anteroventral, posterodorsal and posteroventral nuclei. The posterior division alone, however, projects to lamina 1B and layers 2 and 3 of the anterodorsal, anteroventral and posteroventral nuclei. These results constitute a link between molecular, anatomical and functional approaches on the study of the vomeronasal system. Molecular and functional studies support that the two segregated pathways between the vomeronasal organ and the AOB are functionally different. Similarly, the anatomical approaches to the further connections of this system indicate that the medial amygdala possesses ventral and dorsal divisions that are hodologically and functionally different. The present results demonstrate a differential projection from the posterior AOB to the ventral division of the medial amygdala. These findings indicate that the segregated pathways of the vomeronasal system continue to the level of the amygdala, and they provide some clues about the functional implications.