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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