Southern Ecuador is generally acknowledged to be located in a biodiversity hot spot. Several species of agricultural and horticultural crops can be found there with a huge genetic diversity and can be found in wild or in semi-cultivated status as backyard crops. Cherimoya (Annona cherimola Mill.) and several species of highland papayas (Vasconcella spp.) have their centre of origin in southern Ecuador and are cultivated as minor fruit crops in several subtropical zones worldwide. Little research work has been carried out so far in exploring the crops’ centre of origin. Germplasm collection and characterisation can give valuable information to local and international crop breeding programmes whereas a detailed study of the ecology of wild stands, may provide useful information on climate and soil preferences of the crop and can -combined with a GIS analysesbe used to locate suitable cropping areas. Collection and characterisation of 137 wild and semi-cultivated cherimoya accessions was carried out in southern Ecuador between January 1996 and March 1998. A tremendous variability of pomological characteristics was encountered, typical situation of a main centre of biodiversity. The best accessions collected during these trips can easily withstand preliminary comparison with commercial cherimoya cultivars (‘Fino de Jete’, ‘Bays’, ‘White’, ‘Bronceada’ and ‘Concha Lisa’). The collection of Vasconcella germplasm was carried out between August 1997 and April 2000. A total of 211 accessions of the common species Vasconcella cundinamarcensis (Solms-Laub.) Badillo, V. stipulata (Badillo) Badillo and V. × heilbornii (Badillo) Badillo were collected together with some accessions of the rarer species V. candicans (A. Gray) A.DC., V. microcarpa (Jacq.) A.DC., V. monoica (Desf.) A.DC., V. palandensis (Badillo et al.) Badillo, V. parviflora A.DC. and V. weberbaueri (Harms) Badillo. These accessions showed great variability and raised several questions about their exact taxonomic position. Preliminary studies of the papain content of some of these accessions showed papain activities up to 20 times higher than those of papaya (Carica papaya L.). Edapho-climatological conditions in the collection areas indicated the preferences of cherimoya and highland papayas in their natural environment, and were used, combined with GIS studies, to determine the potential cultivation zones. INTRODUCTION The Andean region with its striking eco-geographical contrasts is generally acknowledged as an important centre of biodiversity and is described as one of the eight centres of plant diversity as defined by Vavilov (Vavilov and Chester, 1950). Ecuador alone accounts for 16,087 plants species (Jorgensen and Leon-Yanez, 1999), being the highest plant diversity of the world per area unit. Within this rich plant biodiversity, several species are known as agricultural or horticultural crops. A lot of these crops however are considered as under-utilised (Izquierdo and Roca, 1998), due to “botanical colonialism” and have often been replaced by crops from Asia, Mexico and Europe Proc. IS on Sust. Use Of Plant Biodiv. Eds. E. Duzyaman Y Badillo et al., 2000) and must be considered as a hot spot for Vasconcella research. In southern Ecuador, Vasconcella cundinamarcensis, V. stipulata and the natural hybrid between these species V. × heilbornii are common and can be found in wild and in backyard gardens. Other less common highland papayas include V. candicans, V. microcarpa, V. monoica, V. palandensis, V. parviflora and V. weberbaueri. Consumption of highland papayas is common in the Andes where fruits are eaten fresh, roasted, in juices, in marmalades or in preserves (Van den Eynden et al., 1999). Only babaco, V. × heilbornii ‘Babaco’, is already commercially developed. It was introduced as a new crop in New Zealand in 1973 (Harman, 1983) from where it spread in the eighties to Australia (Cossio, 1988), Italy (Ferrara et al., 1993), Spain (Merino Merino, 1989), France (CTIFL, 1992), South Africa (Wiid, 1994) and even Switzerland (Evequoz, 1990) and Canada (Kempler et al., 1996) where greenhouse trials are being currently pursued. This study aimed at showing the potential of these native fruit crops. A study of the existing pomological variability in a centre of biodiversity gives valuable information to select potential accessions for future cultivation and/or breeding programmes. An edapho-climatological study of the targeted fruit species in their natural habitat has provided in fact valuable information on their soil and climate preferences which can combined with GISbe used to establish potential cultivation zones. A study of the papain content of highland papayas shows an even broader perspectives for the exploitation of Vasconcella species. RESULTS AND DISCUSSION A collection and characterisation of 137 wild and semi-cultivated cherimoya accessions was carried out in southern Ecuador between January 1996 and March 1998. A large variability of pomological characteristics was encountered, typical for a centre of biodiversity (Scheldeman and Van Damme, 1999). A selection of the best accessions, based on low seed content showed that local accessions easily withstand preliminary comparison with commercial cultivars from Spain (‘Fino de Jete’), United States (‘Bays’ and ‘White’) and Chile (‘Bronceada’ and ‘Concha Lisa’) (Scheldeman et al., 1999). Locally selected cherimoya accessions clearly show higher fruit weight and lower seed