Variation in palm tree plastidial simple sequence repeats, characterization, and potential use

Abstract Palm trees are the third most important botanical family for humans because of their potential use in oils, drugs, cosmetics, food, and feed. Despite their importance, little information on their genetics and molecular variations exists, and a better understanding could contribute to breeding programs. This study aimed to determine the amount, distribution, and organization of plastid simple sequence repeats (cpSSRs) and their potential use in breeding in 52 species belonging to the order Arecales. Plastid genomes were analyzed to identify cpSSRs according to their nature, position, and presence in genic or intergenic regions. Primer pairs were validated in silico for amplification and polymorphisms in these SSRs and their dissimilarities were evaluated. The results showed a high frequency of mononucleotide repeats in the intergenic regions. Approximately 76 primer pairs were generated and are suggested for further studies. The dissimilarity analysis of cpSSRs showed that mono- and trinucleotides were highly abundant in plastid SSRs.