J Biol Chem. 2006 Mar;281(12):8024-33. Latent pathway activation and increased pathway capacity enable Escherichia coli adaptation to loss of key metabolic enzymes. Fong SS, Nanchen A, Palsson BO, et al.
Click on the "GO TO" button to display the flux map.
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
ATP production rate Maximum | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R00267+2.5*R08549-R00405+1.5*R00402+2.5*R00342 +2.5*R00214 |
ATP production rate Minium | N/A | -R01786-R04779+2.5*R01061+R01512+R00200+2.5*R00209 +2.5*R08549-R00405+1.5*R00402+2.5*R00342 |
NADPH production rate Maximum | N/A | R02736+R01528+R00267+R00214 |
NADPH production rate Minium | N/A | R02736+R01528 |
Growth Condition | |
Strains | Escherichia coli MG1655 |
Genotype | Wild type |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.63/h |
Case-specific description | Wild type |
Growth Condition | |
Strains | Escherichia coli pgi mutant |
Genotype | pgi gene knock-out |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.17/h |
Case-specific description | parent mutant |
Growth Condition | |
Strains | Escherichia coli pgiE1 mutant |
Genotype | pgi gene knock-out with endpoints designated E1 |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.34/h |
Case-specific description | evolved mutant(50 days of evolution) |
Growth Condition | |
Strains | Escherichia coli pgiE2 mutant |
Genotype | pgi gene knock-out with endpoints designated E2 |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.53/h |
Case-specific description | evolved mutant(50 days of evolution) |
Growth Condition | |
Strains | Escherichia coli ppc mutant |
Genotype | ppc gene knock-out |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.22/h |
Case-specific description | parent mutant |
Growth Condition | |
Strains | Escherichia coli ppcE1 mutant |
Genotype | ppc gene knock-out with endpoints designated E1 |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.55/h |
Case-specific description | evolved mutant(45 days of evolution) |
Growth Condition | |
Strains | Escherichia coli ppcE2 mutant |
Genotype | ppc gene knock-out with endpoints designated E2 |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.56/h |
Case-specific description | evolved mutant(45 days of evolution) |
Growth Condition | |
Strains | Escherichia coli pta mutant |
Genotype | pta gene knock-out |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.58/h |
Case-specific description | parent mutant |
Growth Condition | |
Strains | Escherichia coli ptaE1 mutant |
Genotype | pta gene knock-out with endpoints designated E1 |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.64/h |
Case-specific description | evolved mutant(30 days of evolution) |
Growth Condition | |
Strains | Escherichia coli ptaE2 mutant |
Genotype | pta gene knock-out with endpoints designated E2 |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.66/h |
Case-specific description | evolved mutant(30 days of evolution) |
Growth Condition | |
Strains | Escherichia coli tpi mutant |
Genotype | tpi gene knock-out |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.18/h |
Case-specific description | parent mutant |
Growth Condition | |
Strains | Escherichia coli tpiE1 mutant |
Genotype | tpi gene knock-out with endpoints designated E1 |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.51/h |
Case-specific description | evolved mutant(50 days of evolution) |
Growth Condition | |
Strains | Escherichia coli tpi mutant |
Genotype | tpi gene knock-out with endpoints designated E2 |
Culture medium | M9 minimal medium supplemented with 2g/L of glucose in 500 ml Erlenmeyer flasks using magnetic stir bars for aeration at 37 Celsius. M9 medium contained (per liter of deionized water)0.8 g NH4Cl, 0.5 g NaCl, 7.5 g Na2HPO4-2H2O,and 3.0 g KH2PO4. The following components were sterilized separately and then added (per liter final volume of medium): 2 ml of 1 M MgSO4, 1ml of 0.1 M CaCl2, 0.3 ml of 1 mM filter sterilized thiamine HCl, and 10 ml of a trace element solution containing (per liter) 1 g of FeCl3-6H2O,0.18 g ZnSO4-7H2O, 0.12 g CuCl2-2H2O, 0.12 g MnSO4-H2O and 0.18 g CoCl2-6H2O. At the startof evolution, initial pre-cultures of each mutant were grown overnight in Luria-Bertani(LB) medium before being transferred to minimal medium for adaptive evolution. |
Carbon source | Glucose |
Growth rate | 0.49/h |
Case-specific description | evolved mutant(50 days of evolution) |
Specific Rate | (mmol g-1 h-1) |
glucose | 8.8 |
acetate | 4.5 |
Pyruvate | 0 |
Specific Rate | (mmol g-1 h-1) |
glucose | 2.3 |
acetate | 0.1 |
Pyruvate | 0 |
Specific Rate | (mmol g-1 h-1) |
glucose | 5.8 |
acetate | 2.6 |
Pyruvate | 0 |
Specific Rate | (mmol g-1 h-1) |
glucose | 5.6 |
acetate | 0 |
Pyruvate | 0 |
Specific Rate | (mmol g-1 h-1) |
glucose | 3 |
acetate | 1.1 |
Pyruvate | 0 |
Specific Rate | (mmol g-1 h-1) |
glucose | 8.1 |
acetate | 2.2 |
Pyruvate | 0 |
Specific Rate | (mmol g-1 h-1) |
glucose | 7.8 |
acetate | 2.2 |
Pyruvate | 0 |
Specific Rate | (mmol g-1 h-1) |
glucose | 9.1 |
acetate | 0.6 |
Pyruvate | 4.3 |
Specific Rate | (mmol g-1 h-1) |
glucose | 10.3 |
acetate | 0.7 |
Pyruvate | 4.6 |
Specific Rate | (mmol g-1 h-1) |
glucose | 8.6 |
acetate | 0.7 |
Pyruvate | 2.8 |
Specific Rate | (mmol g-1 h-1) |
glucose | 2.7 |
acetate | 0.2 |
Pyruvate | 0 |
Specific Rate | (mmol g-1 h-1) |
glucose | 7.8 |
acetate | 1 |
Pyruvate | 0 |
Specific Rate | (mmol g-1 h-1) |
glucose | 7.3 |
acetate | 0.9 |
Pyruvate | 0 |