Table 1.
Number of phyA-regulated genes categorized by functional class and temporal expression pattern
| Functional classification | Early-response genes
(1 h)
|
Late-response genes (3–24 h)
|
Total | ||
|---|---|---|---|---|---|
| Induced | Repressed | Induced | Repressed | ||
| Transcription (Tx) | 18 | 3 | 20 | 29 | 70 |
| Photosynthesis/Chloroplast (P/C) | 7 | 0 | 115 | 4 | 126 |
| Cellular Metabolism (CM) | 5 | 0 | 93 | 54 | 152 |
| Signaling (S) | 4 | 0 | 13 | 8 | 25 |
| Transporters (Tr) | 6 | 0 | 11 | 8 | 25 |
| Growth and Development (G/D) | 0 | 2 | 18 | 25 | 45 |
| Hormone-pathway related (H) | 1 | 0 | 6 | 20 | 27 |
| Stress/Defense (S/D) | 2 | 0 | 32 | 30 | 64 |
| Hypothetical/Unknown (H/U) | 13 | 1 | 178 | 86 | 278 |
| Totals | 56 | 6 | 486 | 264 | 812 |
Genes represented on the microarray whose mRNA abundance was either increased (induced) or decreased (repressed) 2-fold or more under phyA control within 1 h (early) or between 3 and 24 h (late) of the start of FRc irradiation were scored and classified into the broad functional categories shown, according to established or putative function in the plant.