Table III. Functional classification of DEGs in developing seeds of tt2-5 plants at 6 DAP.
Functional classification of the DEGs was performed using the biological process category of Arabidopsis Gene Ontology (http://www.geneontology.com). Percentage (far-right column) refers to the ratio of genes of each functional category relative to total up-regulated or down-regulated DEGs identified in the microarray experiment. The DEGs with log2 ratios greater than 1.00 or less than −1.00 (only GO Slim IDs with P values equal to or less than 0.5) were listed.
| Category | Up-Regulated DEGs |
Down-regulated DEGs |
||||||
|---|---|---|---|---|---|---|---|---|
| ≥2 | 1–2 | Total | Percentage | ≤−2 | −2 to −1 | Total | Percentage | |
| Log2 ratio | ||||||||
| Metabolism | ||||||||
| Flavonoid metabolism | 0 | 1 | 1 | 0.2 | 3 | 0 | 3 | 5.4 |
| Lipid metabolism | 1 | 6 | 7 | 1.6 | 0 | 2 | 2 | 3.6 |
| Carbohydrate metabolism | 15 | 36 | 51 | 11.4 | 1 | 5 | 6 | 10.7 |
| Nucleic acid | 0 | 5 | 5 | 1.1 | 0 | 1 | 1 | 1.8 |
| Amino acid and protein | 7 | 52 | 59 | 13.2 | 2 | 4 | 6 | 10.7 |
| Growth and development | ||||||||
| Leaf and root development | 0 | 1 | 1 | 0.2 | ||||
| Embryo and seed development | 1 | 5 | 6 | 1.3 | 1 | 0 | 1 | 1.8 |
| Flower development | 2 | 1 | 3 | 0.7 | ||||
| Cell growth | 2 | 14 | 16 | 3.6 | 1 | 1 | 2 | 3.6 |
| Cytoskeleton structure | 1 | 0 | 1 | 1.8 | ||||
| Hormone | 4 | 25 | 29 | 6.5 | 2 | 1 | 3 | 5.4 |
| Stress/defense response | 27 | 123 | 150 | 33.6 | 5 | 13 | 18 | 32.1 |
| Cell regulation | ||||||||
| Transcriptional regulation | 11 | 37 | 48 | 10.7 | 1 | 1 | 2 | 3.6 |
| Signaling transduction | 5 | 19 | 24 | 5.4 | 1 | 7 | 8 | 14.3 |
| Electron transport | 0 | 6 | 6 | 1.3 | ||||
| Transport facilitation | 4 | 14 | 18 | 4.0 | ||||
| Other | 5 | 18 | 23 | 5.1 | 0 | 3 | 3 | 5.4 |