This research carried out to compare some of the individuals of Myrtle from bushes in different environmental sites (Lattakia, Safita, Qusul Maaf, northern Aleppo and at different altitudes from the sea surface). The genetic diversity of 19 genotypes was tested using simple sequence repeats (SSRs) technique with 10 primers. The results of DNA extraction showed a high molecular size fragment as a band at the top of each lane, additionally to a partial degradation. At the end DNA concentration, integrity and purity were enough for SSR marker. Genetic variations were detected by SSR marker with similarity coefficient ranged between 0.08 – 0.89 based on Dice coefficient. Total of 27 alleles were scored from 19 genotypes, and the number of alleles was ranged between 2 (myrcom8 and 9) and 4 (myrcom2 and 6). The calculated value of polymorphism information content (PIC) was ≤ 0.5. Nineteen genotypes were distributed on three main clusters, two of them II and III included minimum number of genotypes from humid climate sites, while the majority of genotypes was distributed on cluster I in mixed manner.