Table 4

GO annotation of up- and down-regulated homoeologous copies of genes in the synthetic polyploid wheat

GO term

Biological process

D genome (AT)

AB genome (TC)


suppression

activation

suppression

activation


GO:0009987

cellular process

264

512

145

1231

GO:0008152

metabolic process

214

454

137

1039

GO:0009058

biosynthetic process

127

170

53

494

GO:0019538

protein metabolic process

115

199

78

545

GO:0016043

cellular component organization

72

123

39

290

GO:0006412

translation

64

54**

29

232

GO:0006810

transport

61

108

42

287

GO:0006139

nucleic acid metabolic process

55

101

21

255

GO:0006950

response to stress

53

65

24

201

GO:0007275

Multi-cellular organism development

51

101

31

229

GO:0008150

Biological process

45**

118

45

295

GO:0006464

protein modification process

42

95

30

205

GO:0000003

reproduction

38

69

33

154

GO:0009628

response to abiotic stimulus

30

32

15

88

GO:0009790

embryonic development

29

52

24

121

GO:0009791

post-embryonic development

27

41

19

102

GO:0040007

growth

23

50

21

111

GO:0007049

cell cycle

22

49

26*

93

GO:0006091

precursor metabolites and energy

21

62*

4

97

GO:0006350

transcription

19

56

10

106

GO:0006519

cellular amino acid metabolic process

18

17

0**

72

GO:0009653

anatomical structure morphogenesis

17

42

10

78

GO:0007165

signal transduction

17

55

22

139

GO:0009056

catabolic process

14**

98

21

172

GO:0009607

response to biotic stimulus

13

19

6

36

GO:0009719

response to endogenous stimulus

13

24

2

55

GO:0008219

cell death

11

19

7

39

GO:0030154

cell differentiation

11

35

5

71

GO:0016265

death

11

19

7

41

GO:0019748

secondary metabolic process

10

7

0

12

GO:0005975

carbohydrate metabolic process

9**

80

14

94**

GO:0006259

DNA metabolic process

9

17

3

49

GO:0006629

lipid metabolic process

9

24

5

39

GO:0007154

cell communication

8

16**

5

47**

GO:0019725

cellular homeostasis

7

6

4

34

GO:0009605

response to external stimulus

6

10

2

31

GO:0007267

cell-cell signaling

5

4

1

13

GO:0015979

photosynthesis

5

10

3

15

GO:0016049

cell growth

3

10

3

14

GO:0009991

response to extracellular stimulus

3

5

2

17

GO:0007610

behavior

2

9

2

34

GO:0009908

flower development

2

3

0

8

GO:0009838

abscission

1

0

0

1

GO:0040029

regulation of gene expression, epigenetic

1

8

0

11


* GO categories showing statistically significant overrepresentation of genes (Fisher exact test, FDR ≤ 0.05)

** GO categories showing statistically significant underrepresentation of genes (Fisher exact test, FDR ≤ 0.05)

Akhunova et al. BMC Genomics 2010 11:505   doi:10.1186/1471-2164-11-505

Open Data