Since photosynthesis is the primary process through which light energy absorbed and converted into organic matter, thus, plant chlorophyll pigment (forms A and B) plays an essential role in the progression absorbed solar energy and synthesis of organic matter in a plant. Therefore, this paper aims at the extent to which the optical activity of chlorophyll molecules monitored and methods (non-destructive and destructive) for quantification of chlorophyll content in plants. These methods using to estimate the effect of different stress factors (abiotic, biotic, and xenobiotic) on the efficiency of photosynthesis and bio-productivity on the yield of different varieties. Besides, these methods used to analyze the visual activity of chlorophyll and/ or as well as to evaluate the interaction of weed species with different agricultural practices (mineral nutrition, herbicide treatment, etc.), in addition to studying various aspects of the environmental physiology of weeds and their effect on crop harvesting. Drought stress is one of the most important factors affecting plant growth. Plant growth under drought stress can promote applying microbial pollination, such as using plant growth-promoting roots bacteria. This research carried as a factorial experiment in a completely randomized design. The first step involved bio-fertilizer (A) and control (without bio-fertilizers). The results indicated that the level of treated bacterial inoculation had the highest effect in increasing photosynthetic pigments (p <0.01). While the lowest amount of photosynthetic dyes were recorded under treatment A. Highest and lowest shoot fresh. Weight belonged to the coefficients respectively (p <0.01). The results indicated that using the bio-fertilizer separately had a more positive effect on nutrient absorption than Juniperus phoenicea. Overall, the results indicate that growth-promoting bacteria such as bio-fertilizers have a greater effect on growth, photosynthetic pigments, and nutrient absorption than Juniperus Phenicia. Using a microbial inoculation in agriculture increases plant productivity and resistance to diseases and other influences for instance stress, drought, and nutrient deficiencies. Key words: Juniperus phoenicea, Green plant, Microbial isolates, Medicinal plants, pigments and Chlorophyll.