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Table 4 Changes of transcript abundance of known cytokinin-regulated genes of Arabidopsis thaliana

From: Transcript profiling of cytokinin action in Arabidopsis roots and shoots discovers largely similar but also organ-specific responses

Category

AGI

Description

Ratio

Significance code

Previously published in

   

Root

Shoot

   
   

CKX1 vs. BA0

BA15 vs. BA0

BA120 vs. BA0

BA1080 vs. BA0

CKX1 vs. BA0

BA15 vs. BA0

BA120 vs. BA0

BA1080 vs. BA0

Cytokinin effect

Interaction effect

 

root-specific

AT2G40230

transferase family protein

1.07

0.81

2.72

2.99

2.32

0.93

1.18

2.13

**

·

A B C E

 

AT1G67110

cytochrome P450, cytokinin hydroxylase (CYP735A2)

0.61

4.20

60.65

29.72

2.09

1.05

0.90

2.06

***

***

A C E F

 

AT2G01830

histidine kinase CRE1/AHK4

0.64

1.39

4.14

0.77

1.60

1.38

0.83

1.92

 

*

A C F

 

AT4G16990

disease resistance protein TIR-NBS-LRR class

0.13

0.60

0.47

2.63

0.87

0.57

1.02

0.88

*

*

A F

 

AT4G19170

9-cis-epoxycarotenoid dioxygenase

0.93

0.3

0.18

1.08

1.55

0.68

0.59

0.64

**

 

A F

 

AT1G17190

glutathione S-transferase

1.77

2.85

7.63

1.07

1.75

1.20

0.77

0.56

*

*

C F

 

AT5G47980

transferase family protein

0.35

1.61

6.18

14.36

0.82

0.47

0.56

2.00

**

*

C F

shoot-specific

AT3G48750

A-type cyclin-dependent kinase

0.95

1.00

1.40

0.65

4.01

8.78

7.92

1.84

·

 

A E

 

AT3G62930

glutaredoxin family protein

1.97

2.10

2.06

2.10

0.36

0.88

1.58

2.03

*

·

C E

 

AT3G21670

nitrate transporter NTP3

0.84

0.70

0.72

1.36

2.00

2.66

2.65

4.47

*

 

C F

 

AT5G53290

ERF/AP2 subfamily B-5 member (CRF3)

1.00

2.28

1.71

0.79

3.03

5.47

7.94

6.26

***

***

D

in both organs

AT1G69530

expansin At-EXP1

0.89

1.52

2.18

13.23

0.93

1.00

1.27

4.16

***

 

A B C E

 

AT4G29740

cytokinin oxidase CKX4

0.09

0.43

4.30

2.88

0.83

1.20

1.90

4.44

***

**

A C E F

 

AT1G19050

A-type response regulator ARR7

0.31

4.53

14.48

0.97

0.63

2.57

9.23

2.07

***

 

A B F

 

AT2G40670

A-type response regulator ARR16

0.75

2.73

12.36

1.58

2.04

0.82

4.93

5.68

*

 

A B F

 

AT2G01830

histidine kinase (CRE1/AHK4)

0.64

1.39

4.14

0.77

1.60

1.38

0.83

1.92

 

*

A C F

 

AT1G10470

A-type response regulator ARR4

0.21

0.64

2.53

2.10

0.27

0.93

1.20

1.61

***

 

A B

 

AT2G38750

annexin

0.09

1.73

10.8

6.06

1.15

1.80

2.53

0.69

***

**

A C

 

AT5G64620

invertase/pectin methylesterase inhibitor family protein

1.54

0.67

0.71

0.38

0.11

0.37

0.30

0.47

**

***

A C

 

AT2G20520

fasciclin-like arabinogalactan-protein FLA6

1.65

0.54

1.97

6.21

4.24

1.18

2.64

1.00

·

·

A E

 

AT2G35980

harpin-induced family protein YLS9

0.03

1.67

4.25

5.87

3.26

4.39

1.02

5.26

***

***

A F

 

AT4G10120

sucrose-phosphate synthase, putative

4.24

1.20

0.41

5.24

2.76

1.38

1.87

0.71

·

·

A F

 

AT4G27410

no apical meristem (NAM) family protein RD26

0.78

0.60

1.68

2.62

0.44

0.70

0.85

0.82

*

 

B F

 

AT1G13420

sulfotransferase family protein

0.48

0.68

15.48

1.41

5.43

1.82

0.59

1.00

 

**

C F

 

AT3G50300

transferase family protein

1.92

1.91

5.25

3.00

2.38

0.12

0.28

1.45

 

·

C F

 

AT3G57010

strictosidine synthase family protein

1.24

1.41

7.99

4.19

9.13

2.47

4.27

7.07

***

*

C F

 

AT5G42590

cytochrome P450 CYP71A16

0.76

0.77

11.73

1.74

1.14

0.36

0.38

0.54

**

***

C F

 

AT5G51440

mitochondrial small heat shock protein HSP23.5-M

15.18

3.34

3.32

5.58

0.88

1.42

14.16

2.29

*

*

C F

 

AT1G75820

CLAVATA1 receptor kinase (CLV1)

2.63

1.05

0.79

0.54

0.42

0.34

0.32

0.09

***

***

A

 

AT5G57090

auxin transport protein (EIR1)

3.66

2.12

0.89

0.59

35.26

1.36

1.15

0.86

***

*

A

 

AT5G62920

A-type response regulator ARR6

0.12

1.62

2.35

1.73

0.26

1.28

1.72

0.96

***

·

B

 

AT3g61630

ERF/AP2 member (CRF6)

1.59

0.93

0.97

3.37

0.27

0.84

0.65

1.31

***

***

D

  1. A selection of previously published cytokinin-responsive genes from various publications reporting changes within 24 h were analyzed for their changes in transcript abundance in response to cytokinin induction or cytokinin deficiency in root and shoot samples. Expression ratios are coded by font-variants as described for Table 1. Significance codes indicate p-values calculated as described in Methods: 0.1 > · > 0.05 > * 0.01 > ** 0.001 > ***. Genes that were published in at least two previous publications and selected examples of known regulated genes that were only published once are listed here. In addition, selected examples of known regulated genes that were only published once were added. A more comprehensive list of genes can be found in Additional file 9: Table S5. The publications are coded by letters: A, Rashotte et al., 2003 [15]; B, Brenner et al., 2005 [9]; C, Kiba et al., 2005 [13]; D, Rashotte et al., 2006 [16]; E, Taniguchi et al., 2007 [17]; F, Argyros et al., 2008 [6]. AGI, unique gene identifier assigned to Arabidopsis thaliana genes by TAIR.