Summary of the six root-hypocotyl gene sets organized by functional category
Within each tissue-biased gene set, the percentage of genes in each functional category is shown followed by the number (in parentheses) of genes in each category. The single highest-ranking category (for xylem/phloem-cambium and xylem/nonvascular) or two highest-ranking categories (for xylem, phloem-cambium, nonvascular, and phloem-cambium/nonvascular) for each gene set, from among the classified genes, are shown in bold.
| Functional Category | Tissue-Biased Gene Set | |||||
|---|---|---|---|---|---|---|
| Xylem | Phloem-Cambium | Nonvascular | Xylem/Phloem-Cambium | Xylem/Nonvascular | Phloem-Cambium/Nonvascular | |
| Biogenesis of cell wall | 11 (35) | 9 (18) | 10 (16) | 0 | 5 (2) | 12 (28) |
| Cell rescue, defense, cell death, and aging | 7 (24) | 13 (28) | 17 (26) | 14 (4) | 24 (9) | 8 (20) |
| Cellular communication/signal transduction | 11 (34) | 14 (30) | 3 (4) | 35 (10) | 3 (1) | 11 (26) |
| Cytoskeleton | <1 (1) | 0 | 0 | 0 | 0 | 0 |
| DNA/RNA binding | 0 | 0 | 3 (4) | 0 | 0 | <1 (1) |
| Energy | 2 (5) | 2 (4) | 1 (2) | 0 | 0 | 1 (3) |
| Lignin biosynthesis | 6 (21) | 1 (2) | 6 (10) | 0 | 5 (2) | 2 (5) |
| Metabolism | 9 (28) | 10 (21) | 20 (31) | 10 (3) | 11 (4) | 19 (46) |
| Protein destination | 0 | 0 | 0 | 0 | 0 | 0 |
| Proteolysis | 6 (18) | 5 (11) | 1 (2) | 3 (1) | 11 (4) | 6 (15) |
| Secondary metabolism | 4 (12) | 5 (11) | 5 (8) | 0 | 8 (3) | 3 (8) |
| Transcription | 10 (33) | 9 (18) | 8 (12) | 7 (2) | 5 (2) | 10 (24) |
| Transport facilitation | 11 (34) | 7 (15) | 11 (17) | 17 (5) | 3 (1) | 10 (25) |
| Unclassified | 23 (74) | 25 (53) | 14 (22) | 14 (4) | 24 (9) | 17 (40) |
| Set total | (319) | (211) | (154) | (29) | (37) | (241) |