Skip to main content

Table 2 Information on resulting strains after running the algorithm for the ethanol model.

From: Utilizing elementary mode analysis, pathway thermodynamics, and a genetic algorithm for metabolic flux determination and optimal metabolic network design

  Equal-Weighted Thermodynamically-Weighted
Fitness functiona Ethanol Biomass Ethanol × Biomass Ethanol Biomass Ethanol × Biomass
Number of reactions removed 13 10 18 11 10 11
Number of associated genes (or gene clusters) b 16 8 18 12 10 9
Gene list aceA
ackAB
atpABCDEFGHI
cyoABCD
fbp
frdABCD
glpX
ldhA
mdh
nuoAHJKLMNEFGBC
pflB
poxB
pta
talAB
tdcE
tktAB
aceA
aceEF
ldhA
lpdA
mdh
pgi
pntAB
tktAB
adk
atpABCDEFGHI
cyoABCD
eda
fbp
frdABCD
glpX
ldhA
maeB
mdh
ndh
pckA
pflB
poxB
pps
pta
sfcA
tdcE
atpABCDEFGHI
cyoABCD
fbaAB
gnd
maeB
mdh
ndh
poxB
pta
rpe
sfcA
sucCD
atpABCDEFGHI
cyoABCD
frdABCD
maeB
pgmA
pgml
pntAB
sfcA
tktAB
ytjC
aceA
adk
atpABCDEFGHI
cyoABCD
eda
ndh
pntAB
pta
sucCD
Total number of EMs 23 23 23 16 17 24
Biomass yield (fraction of theoretical) 0.000 0.839 0.456 0.000 0.861 0.483
Ethanol yield (fraction of theoretical) 1.000 0.007 0.584 1.000 0.003 0.499
  1. a Fitness functions are defined in the Methods section. b Enzymes with multiple subunits encoded by different genes in the same operon are only counted once.)