Photosynthetic pigments and related protein complexes have different optimum absorption spectrum. Light quality can directly influence the photochemical reaction during short-term illumination and indirectly influences photosynthetic electron transport through adjusting many biochemical processes such as endogenous metabolic reactions and hormonal balance. After comprehensive understanding the response mechanism of photosynthesis to the different wavelength of LED lighting, one or two kind of necessary light quality and special beneficial light quality can make up a light formula for a kind of photosynthetic organism during certain period and certain environmental conditions, it is a crucial scientific issue that should be established for modern intensive crop or microalgal production system with artificial light (Liu, 2012; Yan and Zheng, 2014). Optimization of lighting system, establishment of light formula and light environment management strategy can increase biomass accumulation by maximizing photosynthetic efficiency and greatly increase the accumulation of photosynthetic products, it is important for crop productivity and microalgae industry. Our results showed that different wavelength of LED lighting specificity influenced the activity of the photosynthetic electron transport, and the combination of light was advantageous to the photosynthetic efficiency. Blue and purple light reduced photosynthetic efficiency but enhanced CEF to induce NPQ and mainly functions for protect PSII and PSI from photoinhibition. These results offer a prerequisite knowledge of crops as well as microalgae with the potential for higher photosynthesis efficiency and biomass accumulation due to photosynthesis is a conservative biological process. While demonstrating the effects of light quality on photochemical reaction is a very complicated process, it needs further comprehensive research.