Under nitrogen deficiency situation, Nannochloropsis spp. accumulate large amounts of lipid in the form of triacylglycerides (TAG). Several researches have studied the mechanism of this process from the perspective of transcriptome and metabolome, yet proteome analysis on this process is still sparse and lacking the analysis of the dynamic adaption to nitrogen deficiency. Here, proteomes for 03h, 06h, 12h, 24h, 48h and 10th day of nitrogen deplete and replete conditions were compared. New proteome results were integrated with existing transcriptome and other data.