Skip to main content

Table 1 Overview of in silico computations: number of elementary modes (EMs) and maximal IPP and biomass carbon yields on different carbon sources [C-mol/C-mol] for computations for E. coli and S. cerevisiae

From: In silico profiling of Escherichia coli and Saccharomyces cerevisiae as terpenoid factories

Organism Carbon source Characteristics EMs Max IPP yield at zero growth Max IPP yield with growth Max biomass carbon yield
E. coli Glucose Wild type 36,590 0.67 0.57 0.85
E. coli Glucose Wild type, anaerobic 8,343 0.48 0.41 0.35
E. coli Glucose ATP source 48,603 0.71 0.57 0.99
E. coli Glucose NADH source 45,570 0.83 0.57 0.99
E. coli Glucose NADPH source 44,842 0.83 0.57 0.99
E. coli Glucose GAP-DH (NADP+) 74,651 0.71 0.62 0.99
E. coli Glucose MVA only 35,968 0.56 0.54 0.85
E. coli Glucose MVA + DXP 44,850 0.67 0.59 0.85
E. coli Glycerol Wild type 26,160 0.78 0.77 0.99
E. coli Glycerol ATP source 29,088 0.83 0.77 0.99
E. coli Glycerol NADH source 29,126 0.83 0.77 0.99
E. coli Glycerol NADPH source 28,252 0.83 0.77 0.99
E. coli Glycerol GAP-DH (NADP+) 62,665 0.83 0.77 0.99
E. coli Glycerol MVA only 22,225 0.56 0.45 0.99
E. coli Glycerol MVA + DXP 28,326 0.78 0.77 0.99
S. cerevisiae Glucose Wild type 9,844 0.53 0.39 0.80
S. cerevisiae Glucose Wild type, anaerobic 495 0.10 0.09 0.21
S. cerevisiae Glucose ATP source 15,326 0.56 0.39 0.89
S. cerevisiae Glucose NADH source 12,080 0.56 0.39 0.89
S. cerevisiae Glucose PDH 17,943 0.56 0.51 0.81
S. cerevisiae Glucose Mitochondrial MVA only 10,232 0.56 0.51 0.80
S. cerevisiae Glucose Mitochondrial + cytosolic MVA 128,427 0.56 0.53 0.82
S. cerevisiae Glucose ACL 17,155 0.55 0.39 0.80
S. cerevisiae Glucose DXP only 8,865 0.64 0.57 0.80
S. cerevisiae Glucose DXP + MVA 11,738 0.64 0.57 0.80
S. cerevisiae Glucose DXP + ATP source 13,731 0.66 0.57 0.89
S. cerevisiae Glucose DXP + NADH source 10,714 0.66 0.57 0.89
S. cerevisiae Glucose DXP + NADPH source 16,754 0.80 0.57 0.89
S. cerevisiae Glucose DXP + TH 25,254 0.67 0.57 0.81
S. cerevisiae Glucose DXP + GAP-DH (NADP+) 28,383 0.67 0.57 0.81
S. cerevisiae Galactose Wild type 9,844 0.53 0.39 0.80
S. cerevisiae Fructose Wild type 9,844 0.53 0.39 0.80
S. cerevisiae Xylose XI 6,330 0.53 0.39 0.80
S. cerevisiae Xylose XR-XDH 16,911 0.53 0.51 0.80
S. cerevisiae Xylose XI + DXP only 7,364 0.64 0.42 0.80
S. cerevisiae Xylose XI + DXP + MVA 9,088 0.64 0.44 0.80
S. cerevisiae Xylose XR-XDH + DXP only 16,513 0.64 0.42 0.80
S. cerevisiae Xylose XR-XDH + DXP + MVA 20,337 0.64 0.51 0.80
S. cerevisiae Glycerol Wild type 2,648,133 0.56 0.47 0.87
S. cerevisiae Glycerol Wild type w/o glyoxylate cycle 5,377 0.56 0.35 0.87
S. cerevisiae Glycerol DXP only 2,401,411 0.67 0.60 0.87
S. cerevisiae Glycerol DXP + MVA 4,038,007 0.67 0.60 0.87
S. cerevisiae Glycerol DXP + NADPH source 3,735,984 0.83 0.80 0.94
S. cerevisiae Glycerol DXP + GAP-DH (NADP+) 6,153,971 0.76 0.63 0.90
S. cerevisiae Ethanol Wild type 2,874,235 0.68 0.59 0.78
S. cerevisiae Ethanol ATP source 3,559,725 0.83 0.59 0.81
S. cerevisiae Ethanol NADH source 3,635,994 0.83 0.62 0.81
S. cerevisiae Ethanol DXP only 2,846,217 0.63 0.57 0.78
S. cerevisiae Ethanol DXP + MVA 3,133,493 0.68 0.59 0.78
  1. GAP-DH (NADP+) = NADP+-dependent glyceraldehyde-3-phosphate dehydrogenase; PDH = cytosolic pyruvate dehydrogenase complex; ACL = ATP-citrate-lyase; TH = soluble and energy-independent transhydrogenase; XI = xylose isomerase pathway; XR-XDH = xylose reductase and xylitol dehydrogenase pathway.