Table IV.
Functional classification of differentially expressed genes in LEC1-OXi transgenic plants
Functional classification of the differentially expressed genes 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 differentially expressed genes identified in the microarray experiment.
| Category | Up-Regulated Differentially Expressed Genes
|
|||||
|---|---|---|---|---|---|---|
| ≥10 | 6–10 | 3–6 | 1–3 | Total | Percentage | |
| log2 ratio | ||||||
| Metabolism | ||||||
| Lipid metabolism | 3 | 8 | 9 | 28 | 48 | 11.3 |
| Carbohydrate metabolism | 0 | 1 | 5 | 27 | 33 | 7.8 |
| Nucleic acid | 0 | 0 | 1 | 11 | 12 | 2.8 |
| Amino acid and protein | 0 | 4 | 2 | 14 | 20 | 4.7 |
| Growth and development | ||||||
| Storage protein | 11 | 1 | 1 | 1 | 14 | 3.3 |
| Embryo and seed development | 0 | 3 | 4 | 5 | 12 | 2.8 |
| Flower development | 1 | 0 | 4 | 2 | 7 | 1.6 |
| Cell wall | 0 | 3 | 1 | 2 | 6 | 1.4 |
| Cytoskeleton structure | 0 | 0 | 0 | 15 | 15 | 3.5 |
| Hormone | 0 | 1 | 1 | 3 | 5 | 1.2 |
| Stress/defense response | 1 | 3 | 2 | 9 | 15 | 3.5 |
| Cell regulation | ||||||
| Transcriptional regulation | 0 | 0 | 5 | 31 | 36 | 8.4 |
| Protein degradation | 0 | 1 | 2 | 13 | 16 | 3.8 |
| Signaling transduction | 0 | 0 | 7 | 31 | 38 | 8.9 |
| Electron transport | 0 | 0 | 3 | 8 | 11 | 2.6 |
| Transport facilitation | 0 | 3 | 2 | 23 | 28 | 6.6 |
| Unknown function | 1 | 3 | 14 | 60 | 78 | 18.4 |
| Other | 1 | 5 | 6 | 19 | 31 | 7.3 |
| Category | Down-Regulated Differentially Expressed Genes
|
|||
|---|---|---|---|---|
| ≤−2 | −2 to −1 | Total | Percentage | |
| log2 ratio | ||||
| Metabolism | ||||
| Lipid metabolism | 7 | 3 | 10 | 3.8 |
| Carbohydrate metabolism | 6 | 6 | 12 | 4.6 |
| Nucleic acid | 4 | 11 | 15 | 5.7 |
| Amino acid and protein | 6 | 29 | 35 | 13.4 |
| Growth and development | ||||
| Embryo and seed development | 3 | 6 | 9 | 3.4 |
| Other development | 2 | 3 | 5 | 1.9 |
| Hormone | 1 | 3 | 4 | 1.5 |
| Stress/defense response | 10 | 7 | 17 | 6.5 |
| Cell regulation | ||||
| Transcriptional regulation | 7 | 12 | 19 | 7.3 |
| Protein degradation | 1 | 7 | 8 | 3.1 |
| Signal transduction | 4 | 9 | 13 | 5.0 |
| Electron transport | 2 | 8 | 10 | 3.8 |
| Transport facilitation | 9 | 13 | 22 | 8.4 |
| Photosynthesis | 6 | 3 | 9 | 3.4 |
| Unknown function | 21 | 34 | 55 | 21 |
| Other | 5 | 14 | 19 | 7.3 |