Table 1 Categorization of genes represented in lignin and flavonoid regulons.
Category/subcategory | Regulon 1 | Regulon 2 | InvRegulon 1 | InvRegulon 2 |
|---|---|---|---|---|
Amino acid metabolism | 8 | 7 | 4 | 16 |
Cell cycle | 2 | 1 | 0 | 2 |
Cell wall | 20 | 6 | 6 | 14 |
Chloroplast/light response/photosynthesis | 3 | 1 | 5 | 14 |
Development | 17 | 12 | 10 | 23 |
DNA binding/histone/chromatin folding/repair | 5 | 1 | 3 | 5 |
Energy/mitochondria | 5 | 2 | 4 | 12 |
General metabolism/catabolism | 10 | 11 | 8 | 35 |
   Biosynthesis: starch | 0 | 5 | 1 | 9 |
   Glycolysis | 5 | 0 | 2 | 9 |
Lipid/fatty acid metabolism | 3 | 5 | 4 | 9 |
Membrane/cytoskeleton/intracellular transport | 11 | 7 | 4 | 9 |
Nucleic acid/nucleotide sugars metabolism | 3 | 2 | 2 | 4 |
Oxidation/reduction | 5 | 2 | 2 | 12 |
Protein synthesis/ribosome/transfer RNA/chaperone | 7 | 1 | 16 | 15 |
Proteolysis/protease/proteasome | 9 | 12 | 12 | 23 |
RNA binding/synthesis/modification | 4 | 6 | 6 | 11 |
Secondary metabolism | 18 | 23 | 4 | 4 |
   Biosynthesis: flavonoid | 2 | 13 | 3 | 3 |
   Biosynthesis: lignin | 11 | 5 | 1 | 1 |
   Biosynthesis: phenylpropanoid | 5 | 4 | 0 | 0 |
Stress/pathogenesis | 4 | 6 | 6 | 21 |
Transporter/pump/ion channel | 9 | 3 | 10 | 28 |
Unknown | 136 | 90 | 81 | 167 |
Vacuole function | 3 | 0 | 1 | 12 |
Total genes | 282 | 198 | 189 | 440 |