Transcriptome-Based Modeling Reveals that Oxidative Stress Induces Modulation of the AtfA-Dependent Signaling Networks in Aspergillus nidulans
Table 2
Gene ID
Gene name
Known/putative function
Stress conditions
Control strain
ΔatfA mutant
MSB
tBOOH
Diamide
MSB
tBOOH
Diamide
“Antioxidant enzyme” genes
AN9339
catB
Catalase
1.4 ± 0.9
2.4 ± 1.2
1.2 ± 0.8
2.9 ± 1.0
3.1 ± 1.2
1.6 ± 0.8
AN10220
ccp1
Cytochrome c peroxidase
5.3 ± 1.1
3.0 ± 1.2
5.1 ± 1.4
1.8 ± 0.7
4.7 ± 1.1
1.7 ± 0.9
AN0932
glrA
Glutathione reductase
4.8 ± 1.4
1.3 ± 0.8
3.4 ± 0.8
1.7 ± 1.1
1.6 ± 1.1
1.2 ± 0.7
AN2846
gpxA
Glutathione peroxidase
2.5 ± 1.3
4.2 ± 2.0
3.5 ± 1.1
1.8 ± 1.0
1.8 ± 0.9
2.8 ± 1.0
AN7567
Glutaredoxin
1.3 ± 0.9
2.5 ± 1.5
3.5 ± 0.7
1.1 ± 0.7
1.6 ± 1.1
1.9 ± 0.9
AN5831
Glutathione transferase
5.3 ± 1.4
3.1 ± 2.0
2.3 ± 1.6
3.3 ± 1.5
2.0 ± 1.0
1.6 ± 0.9
AN3581
trxR
Thioredoxin reductase
4.5 ± 1.0
2.9 ± 1.4
2.8 ± 1.4
4.1 ± 1.2
3.1 ± 1.0
4.9 ± 1.2
AN8692
prxA
Thioredoxin-dependent peroxidase
3.4 ± 1.0
3.8 ± 0.8
3.9 ± 1.4
3.8 ± 1.4
2.7 ± 0.8
3.9 ± 0.9
“Siderophore biosynthesis” genes
AN5823
sidA
L-Ornithine N5-monooxygenase
2.4 ± 0.9
1.2 ± 0.6
−2.5 ± 1.1
0.6 ± 0.8
1.2 ± 0.7
−0.2 ± 0.5
AN8251
hapX
bZIP transcription factor
2.1 ± 0.8
1.2 ± 0.7
0.8 ± 0.5
0.6 ± 0.6
1.5 ± 0.6
0.8 ± 0.5
“Iron-sulfur cluster assembly” genes
AN10584
Cysteine desulfurase
2.5 ± 0.8
1.6 ± 0.9
2.2 ± 1.0
0.4 ± 0.5
0.8 ± 0.5
0.2 ± 0.6
AN2508
Cysteine desulfurase
2.0 ± 0.8
1.3 ± 0.7
0.1 ± 0.5
0.0 ± 0.6
0.2 ± 0.5
0.4 ± 1.0
AN4655
Iron-sulfur transferase
1.9 ± 0.8
2.2 ± 1.0
2.1 ± 0.9
2.3 ± 0.9
3.0 ± 0.7
2.2 ± 1.1
AN0447
Role in iron-sulfur cluster assembly
3.2 ± 0.8
0.8 ± 0.6
3.1 ± 1.1
0.6 ± 0.7
0.9 ± 0.8
1.6 ± 0.7
AN1407
Role in iron-sulfur cluster assembly
2.2 ± 0.7
1.2 ± 0.9
2.9 ± 1.1
0.6 ± 0.8
0.6 ± 0.7
2.6 ± 0.7
AN2155
Role in iron-sulfur cluster assembly
3.1 ± 0.8
1.2 ± 0.6
3.3 ± 1.4
0.9 ± 0.7
1.4 ± 0.8
2.2 ± 0.7
AN3632
Role in iron-sulfur cluster assembly
2.9 ± 0.8
2.0 ± 0.9
0.5 ± 0.9
1.1 ± 0.6
2.7 ± 1.1
0.8 ± 0.6
AN5953
Role in iron-sulfur cluster assembly
1.8 ± 0.8
1.3 ± 0.7
1.6 ± 1.0
0.70 ± 1.1
1.3 ± 0.8
2.6 ± 0.8
AN8485
Role in iron-sulfur cluster assembly
2.5 ± 1.0
3.0 ± 1.2
1.4 ± 0.7
1.5 ± 0.5
1.3 ± 0.6
1.6 ± 0.5
AN10012
Role in iron-sulfur cluster assembly
3.1 ± 1.0
0.8 ± 0.6
1.2 ± 0.5
0.3 ± 0.5
0.4 ± 0.6
1.4 ± 0.9
AN11060
Role in iron-sulfur cluster assembly
3.1 ± 0.9
0.8 ± 0.7
1.2 ± 0.9
2.1 ± 1.1
0.9 ± 0.7
2.5 ± 0.9
“Two-component signal transduction system” genes
AN5296
tcsA
Histidine kinase
2.7 ± 0.8
3.1 ± 1.0
1.9 ± 0.9
0.6 ± 0.6
1.9 ± 0.8
−0.1 ± 0.5
AN1800
tcsB
Histidine kinase
4.2 ± 1.1
2.2 ± 0.7
1.3 ± 0.7
2.4 ± 1.2
1.4 ± 0.8
−0.3 ± 0.7
AN3101
phkB
Histidine kinase
1.5 ± 0.8
−0.5 ± 0.5
−1.3 ± 0.4
−0.5 ± 0.6
−0.6 ± 0.6
−1.7 ± 0.8
AN7945
hk2
Histidine kinase
4.2 ± 1.1
−0.4 ± 0.5
−0.1 ± 0.7
0.2 ± 0.7
0.6 ± 0.7
0.4 ± 0.8
AN4113
hk-8-2
Histidine kinase
2.6 ± 0.5
−0.4 ± 0.6
0.4 ± 0.6
−0.3 ± 0.7
−1.2 ± 0.7
−1.1 ± 0.6
AN6820
hk-8-3
Histidine kinase
2.9 ± 1.0
−0.9 ± 0.4
−2.0 ± 1.1
0.3 ± 0.6
0.4 ± 0.6
0.9 ± 0.7
AN2363
hk-8-6
Histidine kinase
3.5 ± 1.3
1.8 ± 0.8
−0.3 ± 0.6
0.6 ± 0.6
0.2 ± 0.7
−0.9 ± 0.5
“Nitrate utilization” genes
AN1006
niaD
Nitrate reductase
−1.0 ± 0.5
−2.2 ± 1.1
−4.3 ± 1.2
0.5 ± 0.6
−2.2 ± 0.9
−1.9 ± 1.1
AN1007
niiA
Nitrite reductase
−1.5 ± 0.7
−1.4 ± 0.7
−3.2 ± 1.0
0.2 ± 0.6
−1.9 ± 1.0
−2.1 ± 1.2
AN1008
crnA
Nitrate transporter
−4.8 ± 1.2
−1.1 ± 0.7
−2.1 ± 0.9
0.9 ± 0.8
−2.4 ± 1.1
−0.5 ± 0.5
Other genes
AN1168
cch1
Calcium ion transporter
0.1 ± 0.6
0.8 ± 0.7
−1.3 ± 0.6
−0.6 ± 0.7
1.3 ± 0.8
−0.4 ± 0.7
AN1628
enaB
Calcium ion transporter
−1.5 ± 1.1
2.5 ± 1.2
−1.2 ± 0.7
0.4 ± 0.6
1.2 ± 0.5
0.2 ± 0.7
AN4920
pmcB
Calcium ion transporter
0.7 ± 0.8
1.9 ± 0.9
2.1 ± 1.1
−1.3 ± 0.6
1.1 ± 0.5
1.4 ± 0.7
AN8842
mid1
Calcium ion transporter
0.5 ± 0.7
0.8 ± 0.7
0.3 ± 0.6
−1.3 ± 0.7
1.3 ± 0.6
−0.2 ± 0.6
Relative transcription levels were quantified with the ΔΔCP value. Mean ± S.D. values are presented. The actA (AN6542) gene was used as reference gene. Significantly differ from zero according to Student’s t-test (, ).