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Brazil is the world's largest producer of acerola, Malpighia emarginata (Malpighiaceae); the Northeast is responsible for 60% of the national production. The culture of acerola in Brazil has great genetic variability; plantings have high phenotypic diversity and are not very productive, often originating from propagation by seed. We evaluated the genetic diversity of 42 accessions from the Acerola Active Germplasm Bank of Universidade Federal de Pernambuco. Using 15 RAPD primers, 182 markers were obtained, of which 166 were polymorphic and 16 were monomorphic. We found high genetic variability among the accessions (ĤE = 0.29), with no redundancy. Considering the accessions from the states of Pernambuco, Bahia and Pará as distinct groups, there was greater diversity in accessions from Bahia than from the other two states.