Comparative Analysis of SSR and SRAP Sequence Divergence in Citrus Germplasm

In the present study, we sought to determine whether one simple criterion, sequence divergence, can reasonably guide in phylogenetic across a broad scale in Citrus germplasm. Comparative investigation on the performance of the SSR and SRAP markers was conducted in phylogenetic analysis across sequence analysis of the PCR product in the genus Citrus and its relatives. The maximum composite likelihood model was used for pairwise distance calculation. To determine whether there is a difference depending on the method of choice. Somehow, phylogenetic trees were constructed using two algorithms Neighbor Joining (NJ) and Maximum Parsimony (MP) via MEGA 4 software. In contrast some differences in the positioning of some genotypes were observed in the phylogenetic trees created using the two models and the dendrogram from MP across SRAP sequence was the most congruent with Swingle and Reeces treatment of the subfamily Aurantioideae. The results of the present study suggest that evaluation of SRAP variation at the sequence level can be effective than SSR variation in exploring the evolutionary relationships among Citrus species. These results were the new information for future study on Citrus breeding programs such as germplasm characterization, screening of zygotic and nuclear seedlings and developing sequence divergence in Citrus and its relatives.