Table 1.
Transcription factors with over-represented targets in the different clusters
| Targets cluster | TF Name | Peach genome (v2) gene id | TF Cluster | Predicted TF family | TF Arabidopsis homologous | TF Predicted function | Enrichment adjusted p value | |
|---|---|---|---|---|---|---|---|---|
| 1 - dark green | PavMYB63 | Prupe.4G136300 | 1 - dark green | MYB | AT1G79180 | Myb-related protein | 6.7E-03 | (**) |
| PavMYB93 | Prupe.6G188300 | 1 - dark green | MYB | AT1G34670 | Myb-related protein | 3.2E-02 | (*) | |
| PavMYB40 | Prupe.3G299000 | 8 - royal blue | MYB | AT5G14340 | Myb-related protein | 1.7E-02 | (*) | |
| 3 - pink | PavWRKY40 | Prupe.3G098100 | 3 - pink | WRKY | AT1G80840 | WRKY transcription factor | 1.2E-02 | (*) |
| 6 - orange | PavERF110 | Prupe.6G165700 | 8 - royal blue | ERF | AT5G50080 | Ethylene-responsive transcription factor | 5.2E-02 | |
| PavRVE8 | Prupe.6G242700 | 8 - royal blue | MYB | AT3G09600 | Homeodomain-like superfamily protein RVE8 | 5.2E-02 | ||
| 8 - royal blue | PavRVE1 | Prupe.3G014900 | 6 - orange | MYB | AT5G17300 | Homeodomain-like superfamily protein RVE1 | 3.6E-02 | (*) |
| PavABI5 | Prupe.7G112200 | 7 - red | bZIP | AT2G36270 | ABSCISIC ACID-INSENSITIVE 5 | 7.0E-03 | (**) | |
| PavABF2 | Prupe.1G434500 | 8 - royal blue | bZIP | AT1G45249 | abscisic acid responsive elements-binding factor | 7.5E-04 | (***) | |
| 10 - yellow | PavMYB14 | Prupe.1G039200 | 5 - brown | MYB | AT2G31180 | Myb-related protein | 3.9E-02 | (*) |
We investigated whether some differentially expressed transcription factors specifically targeted genes in specific clusters. Based on the gene regulation information available for peach in PlantTFDB [37], overrepresentation of genes targeted by transcription factors was performed using hypergeometric tests. p-values obtained were corrected using a false discovery rate: (***): adj. p-value <0.001; (**): adj. p-value <0.01; (*): adj. p-value <0.05