This study was carried out at tissue culture laborotaries of Ornamental plants and woody trees Department and Plant Biotechnology Department,National Research Center (NRC) Egypt during years 2013 and 2018 to establish an in vitro protocol for micropropagation of Khaya senegalensis from seed plants and The effect of various concentrations of BA and different types of culture media at two strengths (Full and half strengths) for three repeated subcultures on Khaya shootlets proliferation was studied. For rooting stage, Shootlet were precultured on different concentration of IBA for one week and incubated for one week under dark conditions. Also to establish a protocol for micropropagation of Neem tree using direct organogenesis from nodal explants and Neem tree through somatic embryogenesis from in vitro leaves (indirect) and effect of JA on growth as fresh and dry weight on callus and embryos of neem. The results of k.senegalensis, showed that BA concentrations (0.6 and 0.8 mg/L) and repeated subculture for three times led to the highest number of shootlets/explant (5.33), the highest number of nodes (22.0) was obtained with 0.6 mg/L. BAP at 0.2, 0.4 or 0.6 mg/L had promotion effect on shootlet elongation. Using half strength of MS culture medium for three subcultures caused the highest number of both shootlets formed per explant and nodes, whereas full strength of WPM culture medium caused the longest shoots and repeated subcultures had inhibit effect on shootlet elongation. For rooting stage, the highest number of roots was obtained with pretreatment of the in vitro shootlets with IBA at 4.0 ppm for one week in darkness, then transplanting them to 1/2 MS or WPM for 12 weeks, while the longest roots were obtained with ½ MS culture medium. As for the results obtained for the Neem plant, showed that the indirect micropropagation method from in vitro leaf explant of Neem is favored as in vitro propagation comparing with direct one. Zeatin at 2 mg/L achieved the best result of callus weight in the first and second subcultures.The enormous shoots could be produced after five subcultures using 2 mg/L of Zeatin. Un-treated callus culture (control) gave higher fresh and dry weight .The fresh weight of embryos treated with the different concentrations of JA were increased in all periods. The total phenol content in the callus cultures treated with different concentrations of JA was significantly higher than in the untreated callus cultures at all different periods. The treated callus cultures with 0.5 mg/L at day 28 showed the highest content of total flavonoids The highest antioxidant activities were recoded with callus cultures treated by 0.5 mg/L and 0.75 mg/ JA on days 7 and 28 days, and with embryos cultures treated by 0.5 mg/LJA on days 7, 14 and 18 days. Plantlets of Khaya and Neem were successful adapted in peatmoss and sand (1:1). Also,the results of molecular analysis of RAPD and ISSR were obviously revealed that there was no variation between the in vitro derived plants and the mother plant.