Mol Syst Biol. 2013 Nov;9:709. Transcriptional regulation is insufficient to explain substrate-induced flux changes in Bacillus subtilis. Chubukov V, Uhr M, Le Chat L, et al.
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| 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 | Bacillus subtilis BSB168 |
| Genotype | A prototrophic derivative of B.subtilis 168 trpC2. |
| Culture medium | The M9 minimal medium consisted of the following components(per liter): 8.5 g Na2HPO4-2H2O, 3 g KH2PO4, 1 g NH4Cl, 0.5 g NaCl.The following components were sterilized separately and then added (per liter of final medium): 1 mL 0.1 M CaCl2, 1 mL 1 M MgSO4, 1 mL 50 mM FeCl3 and 10 mL trace salts solution.The trace salts solution contained (per liter): 170 mg ZnCl2, 100 mg MnCl2-4H2O, 60.0 mg CoCl2-6H2O, 60.0 mg Na2MoO4-2H2O and 43.0 mg CuCl2-2H2O.Filter-sterilized carbon sources were added separately to the medium,pH neutralized with 4 M NaOH where necessary. |
| Carbon source | Glucose |
| Growth rate | 0.59/h |
| Case-specific description | Substrate uptake rates(q)=7.63 mmol/h/gcdw;growth rates(u)=0.59/h;Glucose |
| Growth Condition | |
| Strains | Bacillus subtilis BSB168 |
| Genotype | A prototrophic derivative of B.subtilis 168 trpC2. |
| Culture medium | The M9 minimal medium consisted of the following components(per liter): 8.5 g Na2HPO4-2H2O, 3 g KH2PO4, 1 g NH4Cl, 0.5 g NaCl.The following components were sterilized separately and then added (per liter of final medium): 1 mL 0.1 M CaCl2, 1 mL 1 M MgSO4, 1 mL 50 mM FeCl3 and 10 mL trace salts solution.The trace salts solution contained (per liter): 170 mg ZnCl2, 100 mg MnCl2-4H2O, 60.0 mg CoCl2-6H2O, 60.0 mg Na2MoO4-2H2O and 43.0 mg CuCl2-2H2O.Filter-sterilized carbon sources were added separately to the medium,pH neutralized with 4 M NaOH where necessary. |
| Carbon source | Fructose |
| Growth rate | 0.53/h |
| Case-specific description | Substrate uptake rates(q)=5.72 mmol/h/gcdw;growth rates(u)=0.53 /h;Fructose |
| Growth Condition | |
| Strains | Bacillus subtilis BSB168 |
| Genotype | A prototrophic derivative of B.subtilis 168 trpC2. |
| Culture medium | The M9 minimal medium consisted of the following components(per liter): 8.5 g Na2HPO4-2H2O, 3 g KH2PO4, 1 g NH4Cl, 0.5 g NaCl.The following components were sterilized separately and then added (per liter of final medium): 1 mL 0.1 M CaCl2, 1 mL 1 M MgSO4, 1 mL 50 mM FeCl3 and 10 mL trace salts solution.The trace salts solution contained (per liter): 170 mg ZnCl2, 100 mg MnCl2-4H2O, 60.0 mg CoCl2-6H2O, 60.0 mg Na2MoO4-2H2O and 43.0 mg CuCl2-2H2O.Filter-sterilized carbon sources were added separately to the medium,pH neutralized with 4 M NaOH where necessary. |
| Carbon source | Gluconate |
| Growth rate | 0.42/h |
| Case-specific description | Substrate uptake rates(q)=5.13 mmol/h/gcdw;growth rates(u)=0.42/h;Gluconate |
| Growth Condition | |
| Strains | Bacillus subtilis BSB168 |
| Genotype | A prototrophic derivative of B.subtilis 168 trpC2. |
| Culture medium | The M9 minimal medium consisted of the following components(per liter): 8.5 g Na2HPO4-2H2O, 3 g KH2PO4, 1 g NH4Cl, 0.5 g NaCl.The following components were sterilized separately and then added (per liter of final medium): 1 mL 0.1 M CaCl2, 1 mL 1 M MgSO4, 1 mL 50 mM FeCl3 and 10 mL trace salts solution.The trace salts solution contained (per liter): 170 mg ZnCl2, 100 mg MnCl2-4H2O, 60.0 mg CoCl2-6H2O, 60.0 mg Na2MoO4-2H2O and 43.0 mg CuCl2-2H2O.Filter-sterilized carbon sources were added separately to the medium,pH neutralized with 4 M NaOH where necessary. |
| Carbon source | Succinate and glutamate |
| Growth rate | 0.22/h |
| Case-specific description | Substrate uptake rates(q)of Succinate=3.35 mmol/h/gcdw;Substrate uptake rates(q)of Glutamate=2.21 mmol/h/gcdw;growth rates(u)=0.22/h;Succinate+Glutamate |
| Growth Condition | |
| Strains | Bacillus subtilis BSB168 |
| Genotype | A prototrophic derivative of B.subtilis 168 trpC2. |
| Culture medium | The M9 minimal medium consisted of the following components(per liter): 8.5 g Na2HPO4-2H2O, 3 g KH2PO4, 1 g NH4Cl, 0.5 g NaCl.The following components were sterilized separately and then added (per liter of final medium): 1 mL 0.1 M CaCl2, 1 mL 1 M MgSO4, 1 mL 50 mM FeCl3 and 10 mL trace salts solution.The trace salts solution contained (per liter): 170 mg ZnCl2, 100 mg MnCl2-4H2O, 60.0 mg CoCl2-6H2O, 60.0 mg Na2MoO4-2H2O and 43.0 mg CuCl2-2H2O.Filter-sterilized carbon sources were added separately to the medium,pH neutralized with 4 M NaOH where necessary. |
| Carbon source | Glycerol |
| Growth rate | 0.40/h |
| Case-specific description | Substrate uptake rates(q)=6.22 mmol/h/gcdw;growth rates(u)=0.40 /h;Glycerol |
| Growth Condition | |
| Strains | Bacillus subtilis BSB168 |
| Genotype | A prototrophic derivative of B.subtilis 168 trpC2. |
| Culture medium | The M9 minimal medium consisted of the following components(per liter): 8.5 g Na2HPO4-2H2O, 3 g KH2PO4, 1 g NH4Cl, 0.5 g NaCl.The following components were sterilized separately and then added (per liter of final medium): 1 mL 0.1 M CaCl2, 1 mL 1 M MgSO4, 1 mL 50 mM FeCl3 and 10 mL trace salts solution.The trace salts solution contained (per liter): 170 mg ZnCl2, 100 mg MnCl2-4H2O, 60.0 mg CoCl2-6H2O, 60.0 mg Na2MoO4-2H2O and 43.0 mg CuCl2-2H2O.Filter-sterilized carbon sources were added separately to the medium,pH neutralized with 4 M NaOH where necessary. |
| Carbon source | Malate |
| Growth rate | 0.57/h |
| Case-specific description | Substrate uptake rates(q)=26.51 mmol/h/gcdw;growth rates(u)=0.57 /h;Malate |
| Growth Condition | |
| Strains | Bacillus subtilis BSB168 |
| Genotype | A prototrophic derivative of B.subtilis 168 trpC2. |
| Culture medium | The M9 minimal medium consisted of the following components(per liter): 8.5 g Na2HPO4-2H2O, 3 g KH2PO4, 1 g NH4Cl, 0.5 g NaCl.The following components were sterilized separately and then added (per liter of final medium): 1 mL 0.1 M CaCl2, 1 mL 1 M MgSO4, 1 mL 50 mM FeCl3 and 10 mL trace salts solution.The trace salts solution contained (per liter): 170 mg ZnCl2, 100 mg MnCl2-4H2O, 60.0 mg CoCl2-6H2O, 60.0 mg Na2MoO4-2H2O and 43.0 mg CuCl2-2H2O.Filter-sterilized carbon sources were added separately to the medium,pH neutralized with 4 M NaOH where necessary. |
| Carbon source | Malate and glucose |
| Growth rate | 0.75/h |
| Case-specific description | Substrate uptake rates(q)of Malate=5.95 mmol/h/gcdw;Substrate uptake rates(q)of Glucose=14.60 mmol/h/gcdw;growth rates(u)=0.75/h;Malate+Glucose |
| Growth Condition | |
| Strains | Bacillus subtilis BSB168 |
| Genotype | A prototrophic derivative of B.subtilis 168 trpC2. |
| Culture medium | The M9 minimal medium consisted of the following components(per liter): 8.5 g Na2HPO4-2H2O, 3 g KH2PO4, 1 g NH4Cl, 0.5 g NaCl.The following components were sterilized separately and then added (per liter of final medium): 1 mL 0.1 M CaCl2, 1 mL 1 M MgSO4, 1 mL 50 mM FeCl3 and 10 mL trace salts solution.The trace salts solution contained (per liter): 170 mg ZnCl2, 100 mg MnCl2-4H2O, 60.0 mg CoCl2-6H2O, 60.0 mg Na2MoO4-2H2O and 43.0 mg CuCl2-2H2O.Filter-sterilized carbon sources were added separately to the medium,pH neutralized with 4 M NaOH where necessary. |
| Carbon source | Pyruvate |
| Growth rate | 0.17/h |
| Case-specific description | Substrate uptake rates(q)=8.26 mmol/h/gcdw;growth rates(u)=0.17/h;Pyruvate |
| Specific Rate | (mmol g-1 h-1) |
| glucose | 7.36 |
| Fructose | N/A |
| gluconate | N/A |
| Succinate | N/A |
| glutamate | N/A |
| Glycerol | N/A |
| malate | N/A |
| pyruvate | N/A |
| Specific Rate | (mmol g-1 h-1) |
| glucose | N/A |
| Fructose | 5.72 |
| gluconate | N/A |
| Succinate | N/A |
| glutamate | N/A |
| Glycerol | N/A |
| malate | N/A |
| pyruvate | N/A |
| Specific Rate | (mmol g-1 h-1) |
| glucose | N/A |
| Fructose | N/A |
| gluconate | 5.13 |
| Succinate | N/A |
| glutamate | N/A |
| Glycerol | N/A |
| malate | N/A |
| pyruvate | N/A |
| Specific Rate | (mmol g-1 h-1) |
| glucose | N/A |
| Fructose | N/A |
| gluconate | N/A |
| Succinate | 3.35 |
| glutamate | 2.21 |
| Glycerol | N/A |
| malate | N/A |
| pyruvate | N/A |
| Specific Rate | (mmol g-1 h-1) |
| glucose | N/A |
| Fructose | N/A |
| gluconate | N/A |
| Succinate | N/A |
| glutamate | N/A |
| Glycerol | 6.22 |
| malate | N/A |
| pyruvate | N/A |
| Specific Rate | (mmol g-1 h-1) |
| glucose | N/A |
| Fructose | N/A |
| gluconate | N/A |
| Succinate | N/A |
| glutamate | N/A |
| Glycerol | N/A |
| malate | 26.51 |
| pyruvate | N/A |
| Specific Rate | (mmol g-1 h-1) |
| glucose | 5.95 |
| Fructose | N/A |
| gluconate | N/A |
| Succinate | N/A |
| glutamate | N/A |
| Glycerol | N/A |
| malate | 14.6 |
| pyruvate | N/A |
| Specific Rate | (mmol g-1 h-1) |
| glucose | N/A |
| Fructose | N/A |
| gluconate | N/A |
| Succinate | N/A |
| glutamate | N/A |
| Glycerol | N/A |
| malate | N/A |
| pyruvate | 8.26 |