Table 2.
Pathexpress analysis of over-represented pathways among the gene probesets that were commonly induced or repressed by drought or active PR treatments in the Ljgln2-2 mutant.
| Pathway | Nb. of enzymes in the pathway | Nb. of enzymes in the dataset | P-value |
|---|---|---|---|
| INDUCED | |||
| Stilbene, coumarine and lignin biosynthesis | 10 | 7 | 0.0001 |
| Lysine degradation | 12 | 7 | 0.0005 |
| Aminosugars metabolism | 12 | 6 | 0.0039 |
| Flavonoid biosynthesis | 15 | 6 | 0.0144 |
| Ascorbate and aldarate metabolism | 8 | 4 | 0.0194 |
| Butanoate metabolism | 21 | 7 | 0.0243 |
| Methane metabolism | 9 | 4 | 0.0311 |
| Glycerolipid metabolism | 18 | 6 | 0.0368 |
| Phenylalanine metabolism | 14 | 5 | 0.0421 |
| Ether lipid metabolism | 10 | 4 | 0.0460 |
| Lipopolysaccharide biosynthesis | 10 | 4 | 0.0460 |
| Sphingolipid metabolism | 10 | 4 | 0.0460 |
| REPRESSED | |||
| Glycolysis/Gluconeogenesis | 27 | 13 | 0.0005 |
| Histidine metabolism | 16 | 9 | 0.0010 |
| Fructose and mannose metabolism | 23 | 11 | 0.0015 |
| Starch and sucrose metabolism | 31 | 13 | 0.0025 |
| Carbon fixation | 22 | 10 | 0.0040 |
| Tetrachloroethene degradation | 3 | 3 | 0.0071 |
| Novobiocin biosynthesis | 3 | 3 | 0.0071 |
| Ascorbate and aldarate metabolism | 8 | 5 | 0.0085 |
| Lysine degradation | 12 | 6 | 0.0155 |
| Metabolism of xenobiotics by cytochrome P450 | 4 | 3 | 0.0242 |
| Porphyrin and chlorophyll metabolism | 20 | 8 | 0.0242 |
| Fatty acid biosynthesis | 7 | 4 | 0.0288 |
| Pentose and glucoronate interconversions | 11 | 5 | 0.0426 |
The significantly over-represented pathways (P < 0.05, no correction) were identified using the Pathexpress software among the groups of gene probesets that were commonly induced or repressed by drought or active PR. The total number of enzymes that compose a pathway (according to the KEGG database) and the number of enzymes of this pathway present in the set of gene probesets analyzed are reported, as well as the significance of the comparison between these two numbers.