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Table 5 Comparison of GO mappings for Tortula ruralis and Phycomitrella patens

From: The rehydration transcriptome of the desiccation-tolerant bryophyte Tortula ruralis: transcript classification and analysis

Relationship level

Gene ontology

ISC

P.pat

ISC

T.rur

T:P

1

    

9981

%

2203

%

 

2

   

biological process

7119

71.33

1673

75.94

1.1

 

3

  

physiological processes

6901

69.14

1641

74.49

1.1

  

4

 

metabolism

5601

56.12

1345

61.05

1.1

   

5

biosynthesis

1672

16.75

498

22.61

1.3

   

5

carbohydrate metabolism

642

6.43

154

6.99

1.1

   

5

carbon utilization

44

0.44

19

0.86

2.0

   

5

catabolism

670

6.71

160

7.26

1.1

   

5

energy pathways

306

3.07

115

5.22

1.7

   

5

oxidative phosphorylation

28

0.28

13

0.59

2.1

   

5

oxygen and ROS metabolism

76

0.76

26

1.18

1.6

  

4

 

photosynthesis

138

1.38

73

3.31

2.4

   

5

photosynthesis, dark reaction

21

0.21

9

0.41

2.0

   

5

photosynthesis, light reaction

56

0.56

41

1.86

3.3

  

4

 

response to external stimulus

232

2.32

74

3.36

1.4

   

5

perception of external stimulus

37

0.37

14

0.64

1.7

   

5

response to abiotic stimulus

75

0.75

22

1.00

1.3

   

5

response to biotic stimulus

136

1.36

45

2.04

1.5

  

4

 

response to stress

231

2.31

61

2.77

1.2

   

5

response to oxidative stress

57

0.57

23

1.04

1.8

   

5

response to water deprivation

8

0.08

6

0.27

3.4

  

4

 

cell growth and/or maintenance

1536

15.39

334

15.16

1.0

 

3

  

cellular process

1845

18.49

409

18.57

1.0

  

4

 

cell communication

310

3.11

75

3.40

1.1

   

5

signal transduction

254

2.54

68

3.09

1.2

  

4

 

cell growth and/or maintenance

1536

15.39

334

15.16

1.0

   

5

cell organization and biogenesis

222

2.22

31

1.41

0.6

   

5

cell proliferation

219

2.19

21

0.95

0.4

   

5

transport

1131

11.33

286

12.98

1.1

 

3

  

development

119

1.19

25

1.13

0.9

2

   

cellular component

4290

42.98

982

44.58

1.0

 

3

  

cell

4137

41.45

963

43.71

1.1

   

5

cell wall

73

0.73

7

0.32

0.4

  

4

 

intracellular

2909

29.15

711

32.27

1.1

   

5

cytoplasm

2041

20.45

563

25.56

1.2

   

5

extrachromosomal DNA

37

0.37

15

0.68

1.8

   

5

nucleus

815

8.17

109

4.95

0.6

   

5

ribonucleoprotein complex

590

5.91

233

10.58

1.8

   

5

thylakoid

116

1.16

46

2.09

1.8

  

4

 

membrane

1628

16.31

368

16.70

1.0

   

5

mitochondrial membrane

104

1.04

43

1.95

1.9

   

5

inner membrane

100

1.00

40

1.82

1.8

   

5

outer membrane

28

0.28

11

0.50

1.8

2

   

molecular function

8755

87.72

1992

90.42

1.0

 

3

  

binding

3530

35.37

758

34.41

1.0

  

4

 

nucleic acid binding

1389

13.92

296

13.44

1.0

   

5

DNA binding

649

6.50

125

5.67

0.9

   

5

nuclease activity

89

0.89

15

0.68

0.8

   

5

RNA binding

330

3.31

58

2.63

0.8

   

5

translation factor activity

176

1.76

54

2.45

1.4

  

4

 

nucleotide binding

1478

14.81

335

15.21

1.0

  

4

 

protein binding

221

2.21

25

1.13

0.5

  

4

 

metal ion binding

616

6.17

161

7.31

1.2

 

3

  

chaperone activity

202

2.02

45

2.04

1.0

  

4

 

heat shock protein activity

57

0.57

17

0.77

1.4

 

3

  

signal transducer activity

233

2.33

58

2.63

1.1

  

4

 

two-component sensor molecule activity

38

0.38

18

0.82

2.2

  

4

 

receptor activity

167

1.67

41

1.86

1.1

   

5

transmembrane receptor activity

30

0.30

17

0.77

2.6

  

4

 

structural constituent of ribosome

553

5.54

239

10.85

2.0

 

3

  

transcription regulator activity

234

2.34

41

1.86

0.8

  

4

 

transcription factor activity

150

1.50

27

1.23

0.8

 

3

  

translation regulator activity

176

1.76

54

2.45

1.4

  

4

 

translation factor, nucleic acid binding

176

1.76

54

2.45

1.4

   

5

translation elongation factor activity

67

0.67

33

1.50

2.2

   

5

translation initiation factor activity

97

0.97

20

0.91

0.9

 

3

  

transporter activity

1115

11.17

286

12.98

1.2

  

4

 

carbohydrate transporter activity

49

0.49

11

0.50

1.0

  

4

 

carrier activity

414

4.15

109

4.95

1.2

  

4

 

channel/pore class transporter activity

68

0.68

25

1.13

1.7

   

5

alpha-type channel activity

59

0.59

23

1.04

1.8

 

3

  

catalytic activity

5294

53.04

1162

52.75

1.0

  

4

 

isomerase activity

183

1.83

48

2.18

1.2

   

5

intramolecular isomerase activity

41

0.41

10

0.45

1.1

  

4

 

kinase activity

735

7.36

137

6.22

0.8

  

4

 

lyase activity

352

3.53

93

4.22

1.2

  

4

 

oxidoreductase activity

960

9.62

264

11.98

1.2

  

4

 

transferase activity

1557

15.60

310

14.07

0.9

  

4

 

hydrolase activity

1764

17.67

374

16.98

1.0

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BMC Genomics

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