Differentially Regulated Genes in the Photosynthesis Pathways over Each of Three Germination Phases. The Light Reactions, Calvin Cycle and Photorespiration pathways and the differentially regulated genes in those pathways are displayed using the MapMan tool. Each differentially regulated gene is displayed as a colored square. Fold changes of their transcript accumulation in each germination process were log3 transformed and displayed as a color scale from red (down-regulated) to blue (up-regulated) in the squares. The members of the same gene family are grouped and displayed together. Differentially regulated genes in early germination (left, top), late germination (right, top) and post-germination are displayed separately.