A Boolean probabilistic model of metabolic adaptation to oxygen in relation to iron homeostasis and oxidative stress

Table 3 Composition of the clusters of mutants from Fig. 6 (rows).

Cluster 1
PCK1 FBP1 POX1 IDH2 IDH1 PIC2 IDP2 GLN1 DUR3 MIR1 STR3 STR2 ALT1 NDI1 CTR2 MHT1 AAT1 GDH1 MSN5 ASN1 MAE1 LSC2 GGC1 DIC1 MDH3 ODC1 PHO89 MAC1 SOD1 ACS1 DUR12 CTP1 CYC7 AAC1
Cluster 2
CH3 MET14 MET16 ISU1 NFS1 ARH1 SUL1 NBP35 NAR1 ACO1 MET2 MET3 MET1 MET6 MET5 MET8 ATM1 HOMOSERINE KGD2 KGD1 CYS4 SAM1 MET25 CYS3 SERINE CFD1 YFH1 SO4 POS5
Cluster 3
TPI1 COX20 HEM14 COX1A13 SFC1 ZWF1 CTA1 PDX3 FAA2 SDH1 SDH3 SDH4 MDH1 NDE1 CCP1 COX2 HEM12 HEM13 HEM15 OSM1 CYC1 CYC3 CTT1 FUM1
Cluster 4
SAH1 PPN1 CDC19 PHO3 PHO2 PEP4 ROX1 LSC1 PHO91 ASP1 PYC1 PDA1 PHO12 COX5A COX5B SDH2 PHO81 CCC1 ADK2 MLS1 OAC1
Cluster 5
ATP689 CYT1 PHO84 ATP710A23 PHO4 QCR2 QCR6 QCR7 QCR8 COR1 PSE1 QCR9 PHO80 ATP1A5 PHO85 CYTB CYT2 QCR10 RIP1
Cluster 6
UTR1 O2 BUD16 COA HEM1 YAT2 ZN2 CRC1 HEM2 HEM3 HEM4 TPN1 CAT2 YIA6 ADK1
Cluster 7
HXK1 ALD2 ICL1 TDH1 FBA1 PFK2 PGK1 PFK1 ENO1 ENO2 GPM1 YNK1
Cluster 8
FET3 FTR1 ATX1 GPX1 GSH2 CU CCC2 CTR1 GSH1
Cluster 9
FET4 AFT12 ZAP1 ISA1 SSQ1 AFT1 AFT2 ZRT1 CIT1
Cluster 10
ADO1 PGI1 GLT1 SAL1 GRX3 MET22 GLR1 SOD2 SMF3
Cluster 11
ACH1 FOX2 LCCA POT1 ADH2 ADH1 PDC1
Cluster 12
FET5 DAL1 FTH1 DAL4 DAL3 DAL2 ALLANTOIN
Cluster 13
FE3 FRE1 CIT2

Each mutant is referred to by its gene name or the constant element that was turned "OFF". COX1A13 = genes COX1 to COX13; ATP1A5 = genes ATP1 to ATP5; ATP710A23 = genes ATP7 and ATP10 to ATP23; ATP689 = genes ATP6, ATP8 and ATP; LCCA = long chain carboxylic acid; ZN2 = Zn2+; FE3 = extracellular Fe3+; COA = coenzyme A.

ISSN: 1752-0509