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Table 2 Organ-specificity of genes differentially expressed in cytokinin-deficient plants

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

Category

CATMA ID

AbB

Ratio CKX1 vs. Col-0

FDR p-value genotype effect

AGI

Description

   

Root

Shoot

   

root-specific

CATMA5a61330

11

18.32

1.26

7.99E-04

AT5G65990

amino acid transporter family protein

 

CATMA3a43475

5

7.63

1.57

9.62E-06

AT3G50410

Dof-type zinc finger domain-containing protein

 

CATMA1a62410

4

5.66

0.63

4.99E-02

AT1G73165

Clavata3 / ESR-Related-1 (CLE1)

 

CATMA5a37900

7

4.72

1.07

4.77E-03

AT5G42200

zinc finger (C3HC4-type RING finger) family protein

 

CATMA3a40595

4

2.86

0.97

5.65E-03

AT3G47600

myb family transcription factor (MYB94)

 

CATMA1a66990

9

2.60

0.89

5.31E-03

AT1G77840

eukaryotic translation initiation factor 5, putative (eIF-5)

 

CATMA4a36496

11

0.27

1.10

1.04E-02

AT4G34680

GATA transcription factor 3, putative (GATA-3)

 

CATMA2a45310

4

0.02

1.03

1.77E-02

AT2G46870

DNA-binding protein, putative

shoot-specific

CATMA4a00090

9

1.00

76.53

1.19E-03

AT4G00080

invertase/pectin methylesterase inhibitor family protein

 

CATMA5a49170

9

1.33

15.44

4.78E-03

AT5G53250

arabinogalactan-protein, putative (AGP22)

 

CATMA4a26210

10

1.46

12.59

1.52E-06

AT4G24480

serine/threonine protein kinase, putative

 

CATMA4a02865

9

1.01

8.82

2.70E-03

AT4G02560

homeobox protein LUMINIDEPENDENS (LD)

 

CATMA3a15410

4

0.55

8.43

1.83E-02

AT3G15990

sulfate transporter, putative

 

CATMA2a44715

11

1.63

4.29

4.50E-04

AT2G46340

phytochrome A supressor spa1 (SPA1)

 

CATMA2a31150

13

0.68

3.08

1.72E-02

AT2G32950

COP1 regulatory protein

 

CATMA2a00475

14

1.07

0.38

2.37E-02

AT2G01420

auxin transport protein, putative

 

CATMA1a08416

13

0.81

0.33

2.02E-02

AT1G09570

phytochrome A (PHYA)

 

CATMA3a19415

16

1.24

0.33

2.33E-02

AT3G19820

cell elongation protein DWARF1 / DIMINUTO (DWF1/DIM)

 

CATMA5a06800

13

0.59

0.20

2.63E-05

AT5G07580

ERF subfamily B-3 of ERF/AP2 transcription factor

 

CATMA4a18523

10

0.72

0.20

2.23E-03

AT4G17490

ERF subfamily B-3 of ERF/AP2 transcription factor (ATERF-6)

 

CATMA2a32570

16

0.69

0.18

1.82E-03

AT2G34420

chlorophyll A-B binding protein (LHB1B2)

 

CATMA4a36460

15

0.99

0.17

3.19E-03

AT4G34620

ribosomal protein S16 family protein

 

CATMA2a24825

13

1.86

0.16

1.26E-02

AT2G26500

cytochrome b6f complex subunit (petM), putative

 

CATMA5a60355

12

0.41

0.15

2.94E-06

AT5G64920

COP1-interacting protein (CIP8)

 

CATMA4a22880

9

1.10

0.15

4.50E-03

AT4G21280

PsbQ subunit of photosystem II

 

CATMA5a59535

4

0.59

0.12

1.99E-04

AT5G64040

photosystem I reaction center subunit PSI-N

 

CATMA1a68150

7

0.70

0.11

8.69E-03

AT1G79040

10 kDa PsbR subunit of photosystem II (PSII)

 

CATMA5a43205

16

0.63

0.11

1.37E-05

AT5G47220

ERF subfamily B-3 of ERF/AP2 transcription factor (ATERF-2)

 

CATMA1a68150

7

0.70

0.11

8.69E-03

AT1G79040

10 kDa PsbR subunit of photosystem II

 

CATMA1a46750

13

1.38

0.06

3.91E-03

AT1G55670

photosystem I reaction center subunit V

 

CATMA5a43215

15

0.78

0.05

7.70E-04

AT5G47230

ERF subfamily B-3 of ERF/AP2 transcription factor (ATERF-5)

 

CATMA2a43300

11

0.52

0.04

9.62E-06

AT2G44840

ERF subfamily B-3 of ERF/AP2 transcription factor

 

CATMA5a57200

11

0.64

0.03

3.30E-03

AT5G61600

ERF subfamily B-3 of ERF/AP2 transcription factor

 

CATMA5a47120

7

0.42

0.03

1.20E-03

AT5G51190

ERF subfamily B-3 of ERF/AP2 transcription factor

similar

CATMA5a07985

10

16.98

57.30

3.42E-03

AT5G08640

flavonol synthase 1 (FLS1)

 

CATMA4a10345

8

24.01

16.17

1.99E-03

AT4G10310

sodium transporter (HKT1)

 

CATMA5a52815

11

3.38

33.99

5.78E-05

AT5G57090

auxin transport protein (EIR1) (PIN2)

 

CATMA2a45915

8

4.11

26.54

5.82E-04

AT2G47460

subgroup 7 of R2R3-MYB family (MYB12)

 

CATMA2a32640

11

3.20

25.43

2.07E-04

AT2G34500

cytochrome P450 family protein

 

CATMA1a04035

5

3.86

5.95

1.72E-02

AT1G05180

auxin-resistance protein (AXR1)

 

CATMA5a12150

15

3.65

4.48

2.57E-04

AT5G13930

chalcone synthase

 

CATMA3a11725

8

4.38

3.17

1.42E-02

AT3G12750

zinc transporter (ZIP1)

 

CATMA3a54340

14

0.34

0.29

2.75E-02

AT3G61190

BON1-associated protein 1 (BAP1)

 

CATMA1a26550

4

0.34

0.26

9.57E-06

AT1G28370

ERF subfamily B-1 of ERF/AP2 transcription factor

 

CATMA1a09322

10

0.30

0.29

1.19E-03

AT1G10470

response regulator 4 (ARR4)

 

CATMA3a16175

16

0.17

0.38

3.92E-03

AT3G16770

ERF subfamily B-2 of ERF/AP2 transcription factor (RAP2.3)

 

CATMA5a04585

11

0.21

0.31

7.30E-03

AT5G05410

DREB subfamily A-2 of ERF/AP2 transcription factor (DREB2A)

 

CATMA3a14565

15

0.26

0.20

4.00E-03

AT3G15210

ERF subfamily B-1 of ERF/AP2 transcription factor (ATERF-4)

 

CATMA5a58475

5

0.11

0.29

6.22E-04

AT5G62920

response regulator (ARR6)

 

CATMA1a66910

8

0.28

0.09

7.72E-04

AT1G77760

nitrate reductase 1 (NR1)

 

CATMA1a57435

6

0.12

0.18

1.18E-03

AT1G68050

F-box family protein (FKF1) / adagio 3 (ADO3)

 

CATMA1b35155

7

0.19

0.05

8.13E-04

AT1G37130

nitrate reductase 2 (NR2)

  1. The table contains an arbitrary selection of genes showing altered transcript abundance under cytokinin deficiency. A number of these genes are discussed in the text. The categorization was performed as described in Methods and in Additional file 1: Figure S1. Expression ratios in roots and shoots of cytokinin-deficient seedlings relative to the wild-type control are given and coded by font variants: bold, upregulation; italics, downregulation; regular, no regulation. CATMA ID, unique identifier for the gene specific tag (probe) on the microarray (data can be queried under http://www.catma.org); AbB, number of spots above background (a rough measure for expression strength); AGI, unique gene identifier assigned by TAIR; Description, edited TAIR database annotation. FDR corrected p-values ≤ 0.03, indicating whether a gene was significantly regulated by cytokinin, are marked with bold numbers.
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BMC Plant Biology

ISSN: 1471-2229

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