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Table 1 Transcription factors with over-represented targets in the different clusters

From: From bud formation to flowering: transcriptomic state defines the cherry developmental phases of sweet cherry bud dormancy

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

(*)

  1. 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