Plant Physiology 155: 1851-1870 (2011)

Regulation of seed germination in the close Arabidopsis relative Lepidium sativum: A global tissue specific transcript analysis

Karl Morris, Ada Linkies, Kerstin Müller, Krystyna Oracz, Xiaofeng Wang, James R. Lynn, Gerhard Leubner-Metzger, William E. Finch-Savage

School of Life Sciences, Warwick University, Wellesbourne, Warwick CV35 9EF, UK (Ka.M., J.R.L., W.E.F.-S.)
University of Freiburg, Faculty of Biology, Institute for Biology II, Botany / Plant Physiology, Schänzlestr. 1, D-79104 Freiburg, Germany (A.L., Ke.M., K.O., G.L.-M.)
College of Life Sciences, South China Agricultural University, Guangzhou 510642, China (X.W.)
Department of Biological Sciences, Simon Fraser University, 8888 University Drive, Burnaby BC V5A 1S6, Canada (Ke.M.)

Received November 23, 2010; accepted February 7, 2011; published February 14, 2011
DOI 10.1104/pp.110.169706

 

RAD

 

 

 

CAP

 

 

 

Tags

8

18

30

96

8

18

30

96

Dormancy related

1

7

6

13

15

20

26

25

Germination related

2

3

3

2

0

0

2

3

ABA

10

16

22

26

8

6

11

12

Auxin

14

14

14

27

10

13

16

12

Brassinosteroid

0

0

1

1

2

3

3

2

Cytokinin

6

3

2

6

1

1

2

2

Ethylene

6

7

7

11

2

5

10

8

Gibberellin

6

5

5

5

2

5

3

3

Jasmonic acid

2

6

3

5

0

1

0

1

Seed storage proteins/Late Embryogenesis Abundant

1

4

4

7

6

10

12

10

Inhibition of protein degradation

1

1

1

1

0

1

0

0

Protein degradation

13

19

24

37

18

22

28

35

Heat Shock

2

5

6

6

7

10

14

17

Cell-wall modification

19

18

15

24

12

18

19

22

Cell cycle related

7

1

9

7

6

14

14

22

Cytoskeleton

6

5

8

6

8

8

14

13

Translation associated

4

1

3

7

63

86

111

137

DNA repair

1

2

3

6

2

4

7

5

Respiration

0

0

0

0

0

1

1

3

Electron Transport

1

2

2

3

0

0

1

2

Pentose phosphate pathway

2

2

4

3

0

0

0

0

Glycolysis and gluconeogenesis

6

9

10

8

0

0

1

4

Krebs cycle

2

3

4

4

1

0

1

1

Beta oxidation

2

2

4

4

0

0

0

0

Stress

36

55

53

53

17

24

38

45

Photosynthesis/chloroplast related

48

60

73

134

34

44

69

121

Unannotated

1

2

1

4

2

2

4

3

Unclassified

346

484

496

828

339

438

593

718

Total genes in lists

545

736

783

1238

555

736

1000

1226

Total genes classified above

199

252

287

410

216

298

407

508

Percentage classified

 36.5

34.2

 36.7

 33.1

 38.9

 40.5

 40.7

41.4


Table 2. The numbers of genes classified in functional categories of the GO-based seed-specific TAGGIT workflow (Carrera et al., 2007) that were up-regulated in the tissue shown at each time point for the +ABA-arrays.

Article in PDF format (2.0 MB)
Supplemental Data File (3.1 MB)
Abstract
Figure 1         Figure 2         Figure 3         Figure 4         Figure 5         Figure 6
Figure 7         Figure 8         Table 1         Table 2         Suppl. Fig. S1     Suppl. Fig. S2
Supplemental Tables:       S1       S4       S5             Suppl. Excel Table Files S2, S3, S6 
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