Table 3.

Comparison of tricarboxylic acid and glyoxylate cycle reactions in Arabidopsis reconstructions.

Reaction	Radrich	Poolman	AraGEM
Succinate + Ubiquinone ↔ Fumarate + Ubiquinol	OK	OK	With FAD/FADH2
Fumarate + H2O ↔ Malate	OK	OK	OK
Malate + NAD ↔ Oxaloacetate + NADH + H Malate + NADP ↔ Oxaloacetate + NADPH + H	No H	Only with NAD/NADH	OK
Oxaloacetate + ADP + Orthophosphate + Acetyl-CoA ↔ Citrate + ATP + CoA	OK	OK	OK
Citrate ↔ cis-Aconitate + H2O	OK	No H2O	OK
cis-Aconitate + H2O ↔ Isocitrate	OK	No H2O	OK
Isocitrate ↔ Succinate + Glyoxylate	OK	OK	OK
Glyoxylate + H2O +Acetyl-CoA ↔ Malate + CoA	OK	No H2O	OK
Isocitrate + NAD ↔ 2-oxoglutarate + CO2 + NADH + H Isocitrate + NADP ↔ 2-oxoglutarate + CO2 + NADPH + H	No H	Only with NAD/NADH; 2 H	OK
Isocitrate + NADP ↔ Oxalosuccinate + NADPH + H	No H	NA	NA
Oxalosuccinate + NADP ↔ 2-oxoglutarate + CO2 + NADPH + H	No H	NA	NA
2-oxoglutarate + CoA + NAD ↔ Succinyl-CoA + CO2 + NADH	OK	OK	With ferredoxin
2-oxoglutarate + Thiamine-pyrophosphate ↔ 3-carboxy-1-hydroxypropyl-ThPP + Co2	OK	NA	OK
3-carboxy-1-hydroxypropyl-ThPP + Lipoamide-E ↔ Succinyldihydrolipoamide-E + Thiamine-pyrophosphate	OK	NA	OK
Succinyldihydrolipoamide-E + CoA ↔ Succinyl-CoA + Dihydropiloamide-E	OK	NA	OK
Succinyl-CoA + ADP + Orthophosphate ↔ Succinate + ATP + CoA Succinyl-CoA + GDP + Orthophosphate ↔ Succinate + GTP + CoA	OK	OK	Only with ADP/ATP

"Radrich" refers to this work, "Poolman" to the model by Poolman et al. [16] and "AraGEM" to the model by de Oliveira Dal'Molin et al. [17]. OK indicates that the reaction in the model is identical to the first column, NA that it is not included in the model; other differences are explicitly described.