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Table 5 Effect of atfA deletion on the transcriptome under different stress conditions

From: Core oxidative stress response in Aspergillus nidulans

  Stress exposuresa
  None MSB l-H2O2 h-H2O2 tBOOH Diamide NaCl
  Number of genes influenced by stress exposure and/or atfA deletion
Increased transcription        
Only in controlb - 1053 117 444 391 497 709
Only in ΔatfA c - 480 318 508 927 387 386
In both strainsd - 521 36 355 975 1380 388
Control vs. ΔatfA e 657 1646 649 585 709 526 725
AtfA-dependentf 657 721 64 130 148 60 313
Ratio of AtfA-dependent genesg   0.46 0.42 0.16 0.11 0.03 0.29
Decreased transcription        
Only in controlh - 1228 189 467 395 696 653
Only in ΔatfA i - 582 201 513 738 519 466
In both strainsj - 468 128 322 1046 1326 379
Control vs. ΔatfA k 542 1815 648 661 749 310 431
AtfA-dependentl 542 857 34 74 91 64 119
Ratio of AtfA-dependent genes   0.51 0.11 0.09 0.06 0.03 0.12
  1. aStressor concentrations are presented in footnotes to Table 2
  2. bUp-regulation was defined by the threshold of log2 (Itreated, control/Iuntreated, control) > 1 and log2 (Itreated, ΔatfA /Iuntreated, ΔatfA ) ≤ 1
  3. cUp-regulation was defined by the threshold of log2 (Itreated, ΔatfA /Iuntreated, ΔatfA ) > 1 and log2 (Itreated, control/Iuntreated, control) ≤ 1
  4. dUp-regulation was defined by the threshold of log2 (Itreated, control/Iuntreated, control) > 1 and log2 (Itreated, ΔatfA /Iuntreated, ΔatfA ) > 1
  5. eUp-regulation was defined by the threshold of log2 (Itreated, control /Itreated, ΔatfA ) > 1
  6. fUp-regulation was defined by the threshold of log2 (Itreated, control /Itreated, ΔatfA ) > 1, log2 (Itreated, control/Iuntreated, control) > 1 and log2 (Itreated, ΔatfA /Iuntreated, ΔatfA ) ≤ 1
  7. gNumber of AtfA dependent genes/number of genes regulated in the control strain
  8. hDown-regulation was defined by the threshold of log2 (Itreated, control/Iuntreated, control) < −1 and log2 (Itreated, ΔatfA /Iuntreated, ΔatfA ) ≥ −1
  9. iDown-regulation was defined by the threshold of log2 (Itreated, ΔatfA /Iuntreated, ΔatfA ) < −1 and log2 (Itreated, control/Iuntreated, control) ≥ −1
  10. jDown-regulation was defined by the threshold of log2 (Itreated, control/Iuntreated, control) < −1 and log2 (Itreated, ΔatfA /Iuntreated, ΔatfA ) < −1
  11. kDown-regulation was defined by the threshold of log2 (Itreated, control /Itreated, ΔatfA ) < −1
  12. lDown-regulation was defined by the threshold of log2 (Itreated, control /Itreated, ΔatfA ) < −1, log2 (Itreated, control/Iuntreated, control) < −1 and log2 (Itreated, ΔatfA /Iuntreated, ΔatfA ) ≥ −1
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BMC Genomics

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