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Table 1 Soybean phenylpropanoid pathway genes responsive to infection by Pseudomonas syringae with (HR) or without (VIR) avrB

From: Transcriptome changes in the phenylpropanoid pathway of Glycine max in response to Pseudomonas syringaeinfection

    

Ratio treatment vs MgCl2 controla

Gene Description

3'-Clone ID

5'-Clone ID

5' or 3' TIGR TC

T2HR

T8HR

T24HR

T2VIR

T8VIR

T24VIR

Phenylalanine ammonia-lyase (PAL)

Gm-r1088-2170

Gm-c1027-2831

TC225162

 

2.46

1.93

   

Phenylalanine ammonia-lyase (PAL)

Gm-r1070-3081

Gm-c1015-4781

TC216854

 

6.23

3.81

  

2.07

Phenylalanine ammonia-lyase (PAL)

Gm-r1021-3996

Gm-c1004-9203

TC225162

 

2.44

2.26

1.05

1.68

 

Phenylalanine ammonia-lyase (PAL)

Gm-b10BB-2

Gm-c1062-1285

TC225162

 

3.39

2.80

2.67

2.19

 

Phenylalanine ammonia-lyase (PAL)

Gm-r1083-3853

Gm-c1028-6208

TC225168

 

3.39

2.62

   

Phenylalanine ammonia-lyase (PAL)

Gm-r1070-4771

Gm-c1016-5168

NA

 

3.18

3.14

   

Cinnamate 4 hydroxylase (C4H)

Gm-r1021-162

Gm-c1004-446

TC204339

 

4.76

1.67

 

2.25

 

Cinnamate 4 hydroxylase (C4H)

Gm-r1021-1649

Gm-c1004-3560

TC204341

 

1.97

    

Cinnamate 4 hydroxylase (C4H)

Gm-r1021-3590

Gm-c1004-8721

TC204341

 

2.58

1.59

1.25

1.89

 

Cinnamate 4 hydroxylase (C4H)

Gm-r1083-1942

Gm-c1028-893

TC204341

 

3.43

1.93

   

4-coumarate:CoA ligase (4CL)

Gm-r1021-2611

Gm-c1004-5129

TC205641

 

2.13

    

4-coumarate:CoA ligase (4CL)

Gm-r1083-3061

Gm-c1028-3891

TC205641

 

3.20

  

1.84

 

4-coumarate:CoA ligase (4CL)

Gm-r1083-3414

Gm-c1028-4979

TC205641

 

2.01

 

1.97

  

4-coumarate:CoA ligase (4CL)

Gm-r1070-5094

Gm-c1016-6727

TC216082

 

1.67

2.50

  

2.17

4-coumarate:CoA ligase (4CL)

Gm-r1021-2223

Gm-c1004-4431

TC216190

 

1.75

1.49

   

4-coumarate:CoA ligase (4CL)

Gm-r1021-3419

Gm-c1004-7053

TC216190

 

2.36

1.61

 

1.65

 

4-coumarate:CoA ligase (4CL)

Gm-r1070-3141

Gm-c1015-4689

TC216191

 

‡

9.45

 

1.80

 

4-coumarate:CoA ligase (4CL)

Gm-r1070-7534

Gm-c1029-1150

TC220028

 

3.23

2.89

 

1.54

1.88

4-coumarate:CoA ligase (4CL)

Gm-r1083-4331

Gm-c1028-7642

TC224198

 

2.93

1.57

   

4-coumarate:CoA ligase (4CL)

Gm-r1070-3331

Gm-c1015-4673

TC225974

 

6.32

  

2.53

 

4-coumarate:CoA ligase (4CL)

Gm-r1083-2896

Gm-c1028-3421

TC226636

 

2.60

2.20

   

4-coumarate:CoA ligase (4CL)

Gm-r1083-4078

Gm-c1028-6958

TC226636

 

5.28

2.13

1.28

2.16

 

4-coumarate:CoA ligase (4CL)

Gm-r1070-2770

Gm-c1015-4573

TC226637

 

7.06

4.96

 

1.56

 

4-coumarate:CoA ligase (4CL)

Gm-r1070-2942

Gm-c1015-3925

NA

 

1.77

2.36

 

1.53

1.85

4-coumarate:CoA ligase (4CL)

Gm-r1083-1803

Gm-c1013-3118

TC229241

 

0.13

0.43

   

4-coumarate:CoA ligase (4CL)

Gm-r1083-779

Gm-c1009-3084

TC221808

 

0.34

0.36

   

4-coumarate:CoA ligase (4CL)

Gm-r1070-515

Gm-c1008-190

TC223132

 

0.37

0.29

 

0.61

0.54

Chalcone synthase (CHS)

*Gm-b10BB-5

Genomic clone

NA

 

36.35

13.22

1.83

12.47

7.15

Chalcone synthase (CHS)

Gm-b10BB-6

Gm-c1004-1721

TC203259

1.07

48.80

63.70

3.31

20.48

16.68

Chalcone synthase (CHS)

Gm-r1021-84

Gm-c1004-874

TC203259

 

30.70

37.53

1.49

9.06

7.21

Chalcone synthase (CHS)

Gm-b10BB-7

Gm-c1004-2866

TC203319

4.92

34.39

50.20

2.07

14.32

15.41

Chalcone synthase (CHS)

Gm-r1083-83

Gm-c1009-670

TC209602

 

48.84

33.82

1.61

10.48

11.39

Chalcone synthase (CHS)

Gm-r1088-5931

Gm-c1065-3606

TC209886

 

20.25

15.56

 

3.25

 

Chalcone synthase (CHS)

Gm-b10BB-4

Gm-c1028-2741

TC214314

 

60.58

23.88

1.84

17.92

9.59

Chalcone synthase (CHS)

Gm-r1070-3019

Gm-c1015-4593

TC214387

2.16

36.76

17.75

1.87

6.77

2.91

Chalcone synthase (CHS)

Gm-b10BB-3

Gm-c1013-1524

TC214443

 

44.57

17.35

1.60

10.28

6.15

Chalcone synthase (CHS)

Gm-r1083-556

Gm-c1009-2808

TC226663

 

23.10

20.97

1.45

7.36

8.40

Chalcone synthase (CHS)

Gm-r1083-853

Gm-c1009-4010

NA

 

30.91

31.56

 

5.24

4.41

Chalcone reductase (CHR)

Gm-r1021-1257

Gm-c1004-2376

TC225256

 

11.39

31.12

 

3.36

3.48

Chalcone reductase (CHR)

Gm-r1021-720

Gm-c1004-1818

TC215169

 

7.01

18.77

 

3.94

2.20

Chalcone reductase (CHR)

Gm-r1021-4150

Gm-c1004-8921

TC215169

 

12.17

23.51

 

3.93

4.24

Chalcone reductase (CHR)

Gm-r1021-2517

Gm-c1004-5030

TC215169

 

8.94

18.25

 

4.82

3.20

Chalcone reductase (CHR)

Gm-r1021-754

Gm-c1004-1771

TC225256

 

8.82

32.00

 

3.14

2.38

Chalcone reductase (CHR)

Gm-r1088-2718

Gm-c1027-5959

TC203399

 

0.23

0.13

   

Chalcone reductase (CHR)

Gm-b10BB-36

Gm-c1062-753

TC203399

 

0.11

0.10

 

0.61

0.41

Chalcone isomerase (CHI)

Gm-r1021-1566

Gm-c1004-3954

TC205496

 

21.11

10.70

1.71

5.82

2.03

Chalcone isomerase (CHI)

Gm-r1021-154

Gm-c1004-613

TC205496

 

10.93

6.28

1.41

3.68

 

Chalcone isomerase (CHI)

Gm-r1083-3171

Gm-c1028-4494

TC205496

 

6.87

3.20

 

2.00

 

Chalcone isomerase (CHI)

Gm-r1021-1440

Gm-c1004-3529

TC205536

 

8.63

13.45

 

4.63

3.58

Chalcone isomerase (CHI)

Gm-b10BB-9

Gm-c1026-2606

TC205536

 

11.42

12.79

9.96

6.30

7.47

Chalcone isomerase (CHI)

Gm-r1083-43

Gm-c1009-620

TC206681

 

12.30

16.45

 

5.28

4.32

Chalcone isomerase (CHI)

Gm-r1070-1290

Gm-c1010-653

TC216488

 

2.89

3.94

  

1.85

Chalcone isomerase (CHI)

Gm-r1083-4382

Gm-c1028-7808

TC216488

 

20.68

7.21

 

2.51

3.23

Chalcone isomerase (CHI)

Gm-r1088-8117

Gm-c1072-871

TC227583

 

5.17

4.23

 

2.06

 

Chalcone isomerase (CHI)

Gm-r1070-3127

Gm-c1015-4783

NA

 

2.14

2.39

   

Isoflavone synthase (IFS1)

*Gm-10BB-30

Gm-c1059-264

NA

 

11.09

8.35

1.39

5.40

3.79

Isoflavone synthase (IFS1)

Gm-r1088-8309

Gm-c1072-1106

TC204648

 

4.72

  

2.14

 

Isoflavone synthase (IFS1)

Gm-r1021-1181

Gm-c1004-3075

TC215321

 

7.01

5.82

1.47

5.03

3.23

Isoflavone synthase (IFS1)

Gm-r1088-1867

Gm-c1027-2050

TC218468

 

3.94

4.50

 

2.25

 

Isoflavone synthase (IFS2)

*Gm-b10BB-29

Gm-c1027-870

TC204612

 

17.30

13.84

1.61

8.12

7.06

Isoflavone synthase (IFS2)

Gm-r1083-3218

Gm-c1028-4877

TC204612

 

15.24

20.97

1.37

6.41

6.82

isoflavone 7-o-methyltransferase (IOMT)

Gm-r1021-2837

Gm-c1004-6344

TC206764

 

53.45

48.17

 

5.35

7.16

isoflavone 7-o-methyltransferase (IOMT)

Gm-r1088-8483

Gm-c1074-35

TC206765

 

58.89

112.99

 

8.28

19.29

isoflavone 7-o-methyltransferase (IOMT)

Gm-r1088-8769

Gm-c1074-599

TC210019

 

78.25

95.67

 

4.14

 

isoflavone 7-o-methyltransferase (IOMT)

Gm-r1021-435

Gm-c1004-1004

TC215839

 

5.28

4.89

1.40

4.23

4.06

isoflavone 7-o-methyltransferase (IOMT)

Gm-r1021-2886

Gm-c1004-6334

TC215839

 

9.06

10.27

1.84

4.50

7.89

Isoflavone reductase (IFR1)

Gm-r1021-2052

Gm-c1004-4918

TC206041

 

15.45

9.58

1.47

6.11

5.13

Isoflavone reductase (IFR1)

Gm-r1070-7511

Gm-c1023-366

TC207832

 

16.00

4.00

   

Isoflavone reductase (IFR1)

Gm-b10BB-33

Gm-c1019-3319

TC207832

 

24.67

31.57

2.81

67.71

49.21

Isoflavone reductase (IFR1)

Gm-r1088-4139

Gm-c1027-9301

TC215002

 

14.42

24.76

   

Isoflavone reductase (IFR1)

Gm-r1088-8260

Gm-c1072-1589

TC215002

 

15.35

7.52

   

Isoflavone reductase (IFR1)

Gm-r1070-6760

Gm-c1019-3354

TC215005

 

50.21

55.33

 

2.89

18.64

Isoflavone reductase (IFR1)

Gm-r1021-3760

Gm-c1004-8266

TC226270

 

41.64

43.11

 

6.50

6.77

Isoflavone reductase (IFR1)

Gm-r1083-4951

Gm-c1028-8510

TC226270

 

28.84

32.22

 

5.90

4.56

Flavonoid 3'-hydroxylase (F3'H)

Gm-b10BB-22

Gm-c1053-348

TC216289

 

1.47

1.96

‡

0.80

 

Flavonoid 3'-hydroxylase (F3'H)

*Gm-b10BB-23

Gm-c1019-10961

NA

 

0.45

1.70

0.76

  

Flavanone 3-hydroxylase (F3H)

*Gm-b10BB-12

Gm-c1012-683

TC226020

 

0.06

0.07

   

Flavanone 3-hydroxylase (F3H)

Gm-b10BB-13

Gm-c1019-2646

TC226020

 

0.24

0.18

  

0.67

Dihydroflavonol 4-reductase (DFR)

Gm-r1070-8296

Gm-r1030-1389

TC225293

 

0.17

0.26

   

Dihydroflavonol 4-reductase (DFR)

Gm-r1021-3500

Gm-c1004-8647

TC225293

 

0.17

0.26

   

Dihydroflavonol 4-reductase (DFR)

Gm-r1083-1327

Gm-c1013-1350

TC225294

 

0.16

0.14

  

0.50

Dihydroflavonol 4-reductase (DFR)

Gm-r1088-7258

Gm-c1067-1717

TC234668

 

0.12

0.20

   

Dihydroflavonol 4-reductase (DFR)

Gm-r1070-7401

Gm-c1019-4941

TC210161

 

4.63

9.99

  

5.50

Dihydroflavonol 4-reductase (DFR)

Gm-r1083-2198

Gm-c1028-1633

TC218842

 

4.92

    

Leucoanthocyanidin dioxygenase (LDOX)

Gm-r1070-1246

Gm-c1010-216

TC217747

      

Leucoanthocyanidin dioxygenase (LDOX)

Gm-r1070-7484

Gm-c1029-932

TC214271

 

0.38

0.35

   

Leucoanthocyanidin dioxygenase (LDOX)

Gm-r1021-2183

Gm-c1004-4454

TC232276

 

1.39

  

1.48

 

Flavonol synthase (FLS)

Gm-b10BB-15

Gm-c1016-13124

NA

 

0.51

0.52

   

Flavonol synthase (FLS)

Gm-r1070-4167

Gm-c1016-3181

TC208467

  

0.51

   

Flavonol synthase (FLS)

Gm-r1083-823

Gm-c1009-3205

TC218780

 

0.21

    

Cynnamoyl CoA reductase (CCR)

Gm-r1021-2461

Gm-c1004-5052

TC226044

 

4.00

2.66

 

2.71

1.56

Cynnamoyl CoA reductase (CCR)

Gm-r1021-523

Gm-c1004-1463

TC204998

 

3.63

    

Cynnamoyl CoA reductase (CCR)

Gm-r1021-2593

Gm-c1004-5056

TC226045

 

3.39

2.64

 

3.34

1.79

Cynnamoyl CoA reductase (CCR)

Gm-r1070-3838

Gm-c1016-1700

TC226917

 

7.41

  

2.14

 

Cynnamoyl CoA reductase (CCR)

Gm-r1088-8005

Gm-c1072-6

TC233163

 

5.82

3.27

   

Cynnamoyl CoA reductase (CCR)

Gm-r1070-1367

Gm-c1008-2980

TC207664

 

0.10

0.10

  

0.61

Cynnamoyl CoA reductase (CCR)

Gm-r1070-914

Gm-c1008-1235

TC225292

 

0.16

0.15

  

0.44

Cynnamoyl CoA reductase (CCR)

Gm-r1070-2653

Gm-c1015-2660

TC225293

 

0.19

0.15

  

0.43

Cynnamyl alcohol dehydrogenase (CAD)

Gm-r1083-4523

Gm-c1028-7532

TC225589

 

2.13

1.99

 

8.06

 

Cynnamyl alcohol dehydrogenase (CAD)

Gm-r1021-3795

Gm-c1004-7796

TC204437

 

1.51

1.93

1.27

1.34

1.32

Cynnamyl alcohol dehydrogenase (CAD)

Gm-r1083-2221

Gm-c1028-695

TC206457

 

12.73

0.56

 

2.07

3.36

Cynnamyl alcohol dehydrogenase (CAD)

Gm-r1021-1331

Gm-c1004-3272

TC225589

  

1.52

   

Cynnamyl alcohol dehydrogenase (CAD)

Gm-r1021-2196

Gm-c1004-5210

TC225589

 

2.25

2.55

   

Cynnamyl alcohol dehydrogenase (CAD)

Gm-r1070-5855

Gm-c1019-927

TC227395

 

0.73

0.72

0.73

 

0.56

Cynnamyl alcohol dehydrogenase (CAD)

Gm-r1083-1322

Gm-c1013-1592

TC230620

 

0.82

0.56

  

0.60

Cynnamyl alcohol dehydrogenase (CAD)

Gm-r1083-3802

Gm-c1028-6101

TC208568

 

0.39

0.32

 

0.56

0.59

Cynnamyl alcohol dehydrogenase (CAD)

Gm-r1083-4013

Gm-c1028-6963

TC225589

 

0.24

0.30

   

Caffeic acid O methyltransferase (COMT)

Gm-r1083-548

Gm-c1009-2413

TC212974

  

2.25

 

0.76

 

Caffeic acid O methyltransferase (COMT)

Gm-r1083-3458

Gm-c1028-5510

TC219214

 

1.54

1.89

 

1.46

1.52

Caffeic acid O methyltransferase (COMT)

Gm-r1021-973

Gm-c1004-2186

TC226262

  

2.01

   

Caffeic acid O methyltransferase (COMT)

Gm-r1083-2739

Gm-c1028-2911

TC226263

  

2.07

 

1.52

1.28

Caffeic acid O methyltransferase (COMT)

Gm-r1083-3457

Gm-c1028-5374

TC226265

 

2.30

2.85

 

1.72

1.65

Caffeic acid O methyltransferase (COMT)

Gm-r1083-2949

Gm-c1028-2922

TC226997

 

11.31

9.85

   

Caffeic acid O methyltransferase (COMT)

Gm-r1070-1306

Gm-c1008-2760

TC203610

 

0.19

0.09

   

Caffeic acid O methyltransferase (COMT)

Gm-r1070-1869

Gm-c1015-70

TC203610

 

0.18

0.10

   

Caffeic acid O methyltransferase (COMT)

Gm-r1070-3522

Gm-c1016-846

TC203610

 

0.14

0.10

   

Caffeoyl Co-A transferase (CCoAMT)

Gm-r1021-3573

Gm-c1004-7957

TC204613

 

1.85

  

1.88

1.54

Caffeoyl Co-A transferase (CCoAMT)

Gm-r1070-3714

Gm-c1016-1000

TC204614

 

1.92

  

1.96

 

Caffeoyl Co-A transferase (CCoAMT)

Gm-r1070-6767

Gm-c1019-3293

TC213310

 

4.79

    

Caffeoyl Co-A transferase (CCoAMT)

Gm-r1083-141

Gm-c1009-796

TC215141

 

3.46

2.06

1.14

2.73

2.62

Caffeoyl Co-A transferase (CCoAMT)

Gm-r1083-4593

Gm-c1028-8263

TC225342

 

1.93

    

Caffeoyl Co-A transferase (CCoAMT)

Gm-r1021-1921

Gm-c1004-4301

TC225343

 

1.67

2.41

   

Caffeoyl Co-A transferase (CCoAMT)

Gm-r1070-6093

Gm-c1019-1156

TC228561

 

2.69

6.87

  

3.48

Caffeoyl Co-A transferase (CCoAMT)

Gm-r1070-5202

Gm-c1016-6589

TC228561

 

2.13

2.17

   

Caffeoyl Co-A transferase (CCoAMT)

Gm-r1088-8678

Gm-c1074-1097

TC228993

 

4.69

18.13

   

Caffeoyl Co-A transferase (CCoAMT)

Gm-r1083-956

Gm-c1009-4174

TC225339

 

0.62

0.50

   

Caffeoyl Co-A transferase (CCoAMT)

Gm-r1021-427

Gm-c1004-1316

TC225339

 

0.45

0.44

  

0.83

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BMC Plant Biology

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