Figure 3.

Comparison of abundance of total and polysomal mRNA in seedlings in the light, following transfer to early darkness, and after brief re-illumination. Graphs represent the change in total steady-state mRNA abundance (x-axis, transcriptome) versus change in immunopurified polysomal mRNA (y-axis, translatome) (A) Comparison of seedlings in light to those shifted to darkness (Light → Dark). (B) Comparison of re-illuminated seedlings to those shifted to darkness (Dark → Re-illumination). (C) Comparison of re-illuminated seedlings versus those in light. Each point on the graphs represents the mean log₂-transformed signal log₂ ratio (SLR) value for an individual gene by comparison of two different treatments (e.g., SLR = log₂ signal Treatment A gene i −log₂ signal Treatment B gene i), using genes without all “absent” calls in the bioreplicates and FDR <0.05 (n = 2508 probe pair sets).