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Table 3 (Information on resulting strains after running the algorithm for the lycopene 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 Lycopene Biomass Lycopene × Biomass Lycopene Biomass Lycopene × Biomass
Number of reactions removed 17 14 13 10 12 10
Number of associated genes (or gene clusters) b 21 15 12 9 9 10
Gene list aceA
adhE
atpABCDEFGHI
cyoABCD
eda
fbp
fdhF
frdABCD
fumABC
glpX
hycBCDEFG
ldhA
maeB
ndh
aceEF
pflB
ppc
pps
pykAF
sfcA
tdcE
ackAB
adhE
adhP
frdABCD
lpdA
maeB
ndh
aceAB
pckA
pgi
poxB
sfcA
sucAB
sucCD
talAB
ackAB
adhE
adhP
adk
fbp
fdhF
glpX
hycBCDEFG
ldhA
pckA
ppc
pta
adk
eda
frdABCD
gnd
ndh
aceB
rpe
sucCD
tktAB
aceA
adhE
adhP
fbaAB
ldhA
maeB
ndh
rpe
sfcA
aceAB
adhE
atpABCDEFGHI
cyoABCD
ldhA
pgmA
pgml
poxB
pta
ytjC
Total number of EMs 18 21 80 174 35 86
Biomass yield (fraction of theoretical) 0.000 0.900 0.272 0.000 0.842 0.410
Lycopene yield (fraction of theoretical) 0.968 0.015 0.698 0.646 0.001 0.418
  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.)