In spite of important results of the coffee (Coffea arabica) breeding programs in America, cultivated varieties remain exposed to several biotic and abiotic factors limiting crop production. Interspecific hybridization represents a useful way to introgress “good” genes into new varieties, however lack of information on gene flow mechanisms, remains as the main difficulty. The aim of this study was to characterize two hybrid populations derived from crosses between the cultivated C. arabica and the diploid species C. liberica and C. eugenioides which carry interesting traits for the Colombian coffee breeding program. The hybrid status of studied plants was confirmed through cytological and molecular methods. Further, using morphological descriptive traits (related to leaves, flowers and fruits), a comparison between hybrids and parental species was done. Results showed that hybrids exhibited homogeneous karyotypes (chromosome length ranged from 0,8 o 2,2 µm) with 33 chromosomes. Morphological analyses revealed a high hybrid vigor among the F1 plants with quite predominance of intermediate forms. While some morphological traits in hybrids overcome values in the parents, other traits like leaf size, showed significant proximity to C. arabica. Such phenotypic closeness with arabica would be important during future reciprocal selection when recover the phenotype of the cultivated species is the goal.