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<i>Colletotrichum</i> species are important pathogens in commercially important fruits like mango and tree tomato. This pathogen is responsible for anthracnose and necrotic lesion in fruit, leaves, and stems of these plants. Fruit and leaf samples, from tree tomato and mango, were colleted in 17 locations between Cundinamarca and Tolima. A total of 88 strains were isolated, and their morphology was characterized by growing them on different culture media as PDA (Potato Dextrose Agar), malt agar and B media. As result it was determined that most common isolates from tree tomato were <i>Colletotrichum acutatum</i>, and <i>Colletotrichum gloesporioides </i>from both mango and tree tomato. As expected, the morphological traits of colonies such as colony pigments on different media, conidia size, sporulation rate and other physiological traits, differed between species and we discussed how these physiological and morphological traits contribute to the polyphasic identification of the species in the genus <i>Colletotrichum</i>. <p><p>Keywords: Fungus, Tropical-Subtropical Crops