DNA finger print based on nuclear and chloroplast genome, combine analysis on Sulawesi cacao (Theobroma cacao L.)

High genetic diversity and high similarity on phenotypic performance of local Sulawesi cacao (Theobroma cacao L.) was challenge in elucidating of identification including developing of DNA fingerprint approaches. Identification of nuclear genome polymorphism, based on RAPD and SSR marker are well established. Recently, genetic variation on chloroplast genome was introduced as alternative in this polymorphism identification works. Here we analysis the possibility of application of SSR and chloroplast markers independently, also in combination of both approaches. The combination analysis showed the accuracy in analyzing sub species level on local Sulawesi cacao.