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Table 2 Fifty most highly upregulated transcripts on 2 and/or 4 week time points of spruce wood cultivations of P. radiata

From: Time-scale dynamics of proteome and transcriptome of the white-rot fungus Phlebia radiata: growth on spruce wood and decay effect on lignocellulose

Gene id

Top 50 day 14

Top 50 day 28

Log2fc day 14

Log2fc day 28

Protein abundance (% of total MS intensity)

Function

Family

7 days

14 days

21 days

28 days

42 days

Minus.g6827

x

 

10.72

4.49

1.03

1.08

0.26

0.01

0.00

Lignin peroxidase (LiP2)

AA2

Minus.g11349

x

x

10.32

8.74

0.79

0.61

0.46

0.39

0.37

Alcohol oxidase

AA3

Plus.g9320

x

x

10.16

9.36

0.03

0.06

0.05

0.07

0.06

Lytic polysaccharide monooxygenase

AA9

Plus.g11539

x

x

9.96

8.43

0.02

0.07

0.10

0.14

0.07

Lytic polysaccharide monooxygenase

AA9

Plus.g2118

x

x

9.7

9.59

     

Oligopeptide transporter

 

Minus.g10274

x

x

9.24

7.95

     

Lytic polysaccharide monooxygenase

AA9

Minus.g3073

x

 

8.71

1.72

0.91

0.32

0.10

0.00

0.00

Lignin peroxidase 1 (LiP1)

AA2

Plus.g1419

x

x

8.55

7.25

8.33

3.86

3.76

3.08

3.81

Manganese peroxidase (MnP1-long)

AA2

Plus.g1442

x

x

8.52

7.86

0.00

0.03

0.03

0.06

0.07

Acid protease, family A01A

 

Minus.g10376

x

x

8.46

6.4

     

Hypothetical protein

 

Minus.g3552

x

x

8.46

5.49

0.03

0.06

0.05

0.03

0.01

Lytic polysaccharide monooxygenase

AA9

Plus.g12321

x

x

8.43

7.48

0.01

0.01

0.03

0.01

0.01

Acetyl xylan esterase

CE1

Plus.g10527

x

x

8.07

8.37

0.00

0.05

0.14

0.06

0.04

Copper radical oxidase

AA5

Minus.g8138

x

 

8.07

5.16

     

Hypothetical protein

 

Plus.g10872

x

x

7.62

6.5

0.29

0.39

0.23

0.45

0.68

Tripeptidyl peptidase, family S53

 

Minus.g4805

x

 

7.62

4.5

0.15

0.15

0.11

0.06

0.02

Glutathione transferase

 

Plus.g6944

x

x

7.61

7.75

0.00

0.00

0.01

0.02

0.03

Carboxypeptidase, family S10

 

Minus.g2657

x

x

7.59

5.73

     

MFS general substrate transporter

 

Minus.g3349

x

x

7.32

6.01

     

Carbohydrate-binding module family 1 protein

CBM1

Plus.g4342

x

x

7.2

7.32

0.20

0.32

0.22

0.23

0.10

Cellobiohydrolase

GH6

Minus.g4996

x

x

7.19

7.06

     

Sugar transporter

 

Plus.g8760

x

 

7.19

3.71

0.15

0.22

0.10

0.01

0.00

s-adenosyl-l-methionine-dependent methyltransferase

 

Minus.g11037

x

 

7.18

0.36

0.00

0.02

0.00

0.00

0.00

β-1,4-endoxylanase

GH10

Plus.g12778

x

x

7.12

7.36

0.06

0.14

0.28

0.70

1.29

GDSL-like lipase acylhydrolase

 

Minus.g8600

x

x

7.08

6.33

0.00

0.01

0.02

0.15

0.16

Oxalate decarboxylase

 

Minus.g3792

x

x

7.07

6.02

     

Hypothetical protein

 

Plus.g3697

x

 

7.02

4.94

0.01

0.04

0.04

0.02

0.01

β-1,4-endoxylanase

GH11

Minus.g3846

x

 

6.96

5.43

     

Hypothetical protein

 

Plus.g6610

x

x

6.89

5.87

     

Hexose transporter

 

Minus.g10273

x

x

6.86

5.93

     

Lytic polysaccharide monooxygenase

AA9

Minus.g927

x

x

6.83

6.58

0.14

0.19

0.22

0.21

0.21

Tripeptidyl peptidase, family S53

 

Plus.g6929

x

x

6.83

6.5

     

Hydrophobin

 

Minus.g7795

x

x

6.73

6.38

0.05

0.07

0.11

0.08

0.05

Clavaminate synthase

 

Minus.g3957

x

x

6.7

6.6

0.02

0.04

0.05

0.09

0.13

Acetylesterase

CE16

Plus.g11538

x

 

6.59

3.44

0.02

0.12

0.08

0.04

0.01

Lytic polysaccharide monooxygenase

AA9

Plus.g5095

x

 

6.58

2.97

0.00

0.04

0.03

0.01

0.01

NAD-binding oxidoreductase

 

Minus.g2367

x

 

6.55

3.09

0.50

0.46

0.26

0.06

0.01

s-adenosyl-l-methionine-dependent methyltransferase

 

Plus.g8273

x

 

6.5

5.14

     

Grp1/Fun34/YaaH domain transporter protein

 

Plus.g13374

x

 

6.48

5.25

0.02

0.07

0.06

0.05

0.02

Lytic polysaccharide monooxygenase

AA9

Plus.g11441

x

 

6.46

3.65

1.65

2.24

1.93

1.23

1.09

NAD-dependent formate dehydrogenase

 

Minus.g3726

x

 

6.36

4.61

0.00

0.01

0.02

0.01

0.01

Dihydrodipicolinate synthetase

 

Plus.g917

x

x

6.33

6.17

     

Hydrophobin

 

Plus.g3219

x

x

6.29

7.06

0.00

0.00

0.00

0.01

0.01

Carboxylesterase

 

Plus.g4436

x

 

6.27

3.9

     

Hypothetical protein

 

Minus.g9081

x

 

6.26

5.03

0.02

0.06

0.08

0.11

0.05

Exo-β-1,3/1,6-glucanase

GH131

Minus.g12191

x

x

6.23

5.7

0.07

0.11

0.07

0.09

0.03

β-1,4-endoxylanase

GH10

Plus.g4845

x

 

6.19

4.84

0.35

0.42

0.53

0.58

0.50

Short-chain dehydrogenase/reductase SDR

 

Minus.g11036

x

 

6.18

4.12

0.03

0.03

0.02

0.02

0.01

β-1,4-endoxylanase

GH10

Minus.g9727

x

x

6.16

5.67

     

MFS general substrate transporter

 

Minus.g9590

x

x

6.14

5.76

0.03

0.09

0.15

0.27

0.21

Peptidase, family G1

 

Minus.g8467

 

x

6.13

5.61

0.04

0.05

0.08

0.07

0.09

Homoserine O-acetyltransferase

 

Minus.g5595

 

x

6.07

5.55

0.16

0.54

0.34

0.18

0.04

Cellobiohydrolase

GH7

Minus.g10025

 

x

6.04

5.58

0.02

0.01

0.01

0.02

0.01

Acetylesterase

CE16

Minus.g9239

 

x

5.92

5.93

0.00

0.01

0.06

0.03

0.06

Unknown protein

 

Plus.g4481

 

x

5.74

5.57

     

Cupredoxin domain protein

 

Plus.g5796

 

x

5.7

6.17

0.02

0.01

0.02

0.01

0.02

Exo-β-1,3/1,6-glucanase

GH131

Plus.g8890

 

x

5.7

5.6

     

Hydrophobin

 

Minus.g5364

 

x

5.57

5.65

0.00

0.02

0.06

0.11

0.27

α-glucuronidase

GH115

Minus.g7830

 

x

5.46

5.71

0.20

0.37

0.57

0.82

1.14

Alpha/beta-hydrolase

 

Plus.g8163

 

x

5.4

6.73

0.01

0.05

0.13

0.39

0.53

Cellobiohydrolase

GH7

Plus.g4813

 

x

5.37

7.76

0.09

0.44

0.64

1.21

1.65

GMC oxidoreductase

AA3

Plus.g7451

 

x

5.36

5.51

0.09

0.22

0.16

0.18

0.09

β-1,4-endoglucanase

GH5_5

Minus.g3151

 

x

5.23

6.27

0.01

0.05

0.08

0.17

0.13

Mannosyl-oligosaccharide 1,2-α-mannosidase

GH47

Plus.g8155

 

x

5.22

6.2

     

WSC-domain-containing protein

 

Plus.g6787

 

x

5.2

5.47

     

APC amino acid permease

 

Minus.g4639

 

x

5.06

5.73

     

Glycoside hydrolase family 92 protein

GH92

Minus.g1646

 

x

4.95

5.72

     

Oligopeptide transporter

 

Minus.g10423

 

x

4.07

5.49

     

Oligopeptide transporter

 

Plus.g4812

 

x

3.24

5.79

     

Hypothetical protein

 
  1. Abundance values are given for proteins identified by peptide LC–MS/MS
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