Table 5 Vienna7 pupae vs. wild Hawaiian wild-type pupae differentially regulated genes GO term enrichment

Up-regulated genes

GO:0006412

Translation

103

45

20.64

2.90E-08

GO:0022900

Electron transport chain

48

24

9.62

3.00E-06

GO:0019079

Viral genome replication

13

10

2.61

1.60E-05

GO:0009409

Response to cold

8

7

1.6

8.40E-05

GO:0019058

Viral infectious cycle

18

11

3.61

0.00016

GO:0006091

Generation of precursor metabolites

117

40

23.45

0.0002

GO:0009631

Cold acclimation

5

5

1

0.00032

GO:0022904

Respiratory electron transport chain

12

8

2.41

0.00058

GO:0006626

Protein targeting to mitochondrion

10

7

2

0.00086

GO:0070585

Protein localization to mitochondrion

10

7

2

0.00086

GO:0072655

Establishment of protein localization

10

7

2

0.00086

GO:0065004

Protein-DNA complex assembly

27

13

5.41

0.00093

GO:0042773

ATP synthesis coupled electron transport

8

6

1.6

0.00123

GO:0042775

Mitochondrial ATP coupled electron transport

8

6

1.6

0.00123

GO:0044237

Vellular metabolic process

2258

492

452.56

0.00136

GO:0016032

Viral reproduction

39

16

7.82

0.00211

GO:0044764

Multi-organism cellular process

39

16

7.82

0.00211

GO:0008152

Metabolic process

2745

586

550.16

0.00217

GO:0016125

Sterol metabolic process

36

15

7.22

0.0024

GO:0007017

Microtubule-based process

186

53

37.28

0.00298

GO:0006119

Oxidative phosphorylation

9

6

1.8

0.00307

GO:0006767

Water-soluble vitamin metabolic process

9

6

1.8

0.00307

GO:0034660

NcRNA metabolic process

74

25

14.83

0.00365

GO:0006839

Mitochondrial transport

21

10

4.21

0.00405

GO:0006457

Protein folding

52

19

10.42

0.00407

GO:0042254

Ribosome biogenesis

60

21

12.03

0.00467

GO:0042982

Amyloid precursor protein metabolism

7

5

1.4

0.00468

GO:0045940

Positive regulation of steroid metabolism

7

5

1.4

0.00468

GO:0031047

Gene silencing by RNA

28

12

5.61

0.00491

GO:0015931

Nucleobase-containing compound transport

53

19

10.62

0.00518

GO:0009617

Response to bacterium

72

24

14.43

0.00528

GO:0044267

Cellular protein metabolic process

609

146

122.06

0.00579

GO:0000226

Microtubule cytoskeleton organization

137

40

27.46

0.00594

GO:0022415

Viral reproductive process

32

13

6.41

0.00598

GO:0007379

Segment specification

22

10

4.41

0.00611

GO:0008202

Steroid metabolic process

54

19

10.82

0.00653

GO:0001666

Response to hypoxia

43

16

8.62

0.00663

GO:0006379

mRNA cleavage

5

4

1

0.00674

GO:0034433

Steroid esterification

5

4

1

0.00674

GO:0034434

Sterol esterification

5

4

1

0.00674

Down-regulated genes

GO:0065007

Biological regulation

1938

577

429.5

5.50E-28

GO:0050794

Regulation of cellular process

1625

503

360.13

4.80E-27

GO:0007154

Cell communication

996

346

220.73

4.00E-26

GO:0023052

Signaling

980

341

217.19

8.30E-26

GO:0044700

Single organism signaling

980

341

217.19

8.30E-26

GO:0050789

Regulation of biological process

1780

533

394.48

4.40E-25

GO:0003008

System process

462

185

102.39

2.30E-20

GO:0048646

Anatomical structure formation

662

240

146.71

9.10E-20

GO:0044699

Single-organism process

2913

755

645.58

1.90E-19

GO:0044763

Single-organism cellular process

2412

653

534.55

2.50E-19

GO:0009653

Anatomical structure morphogenesis

761

265

168.65

3.80E-19

GO:0050877

Neurological system process

385

158

85.32

1.50E-18

GO:0048468

Cell development

610

222

135.19

2.20E-18

GO:0007165

Signal transduction

804

274

178.18

2.40E-18

GO:0044707

Single-multicellular organism process

1699

491

376.53

7.30E-18

GO:0044767

Single-organism developmental process

1185

369

262.62

7.60E-18

GO:0030182

Neuron differentiation

331

140

73.36

8.60E-18

GO:0032501

Multicellular organismal process

1737

497

384.95

4.10E-17

GO:0048513

Organ development

697

242

154.47

4.10E-17

GO:0010646

Regulation of cell communication

412

161

91.31

1.90E-16

GO:0035556

Intracellular signal transduction

359

145

79.56

2.90E-16

GO:0048731

System development

1025

324

227.16

2.90E-16

GO:0023051

Regulation of signaling

417

162

92.42

2.90E-16

GO:0048699

Generation of neurons

356

144

78.9

3.20E-16

GO:0007267

Cell-cell signaling

264

115

58.51

8.30E-16

GO:0007268

Synaptic transmission

181

88

40.11

9.20E-16

GO:0048856

Anatomical structure development

1301

389

288.33

1.60E-15

GO:0009887

Organ morphogenesis

316

130

70.03

2.30E-15

GO:0032989

Cellular component morphogenesis

362

143

80.23

4.50E-15

GO:0016043

Cellular component organization

1160

353

257.08

4.90E-15

GO:0050793

Regulation of developmental process

339

135

75.13

1.40E-14

GO:0007275

Multicellular organismal development

1356

398

300.52

1.90E-14

GO:0030154

Cell differentiation

927

292

205.44

3.70E-14

GO:0035637

Multicellular organismal signaling

206

93

45.65

4.60E-14

GO:0019226

Transmission of nerve impulse

203

92

44.99

4.70E-14

GO:0000904

Cell morphogenesis involved in different…

249

106

55.18

8.40E-14

GO:0009966

Regulation of signal transduction

363

140

80.45

9.10E-14

GO:0007399

Nervous system development

617

210

136.74

1.20E-13

GO:0048666

Neuron development

294

119

65.16

1.70E-13

GO:0000902

Cell morphogenesis

315

125

69.81

2.10E-13

GO:0048869

Cellular developmental process

964

298

213.64

3.00E-13