Table 1

Flux constraints set for the different environmental scenarios discussed in the main text.

Pathway/Reaction

S1 general photoheterotrophic

S2 constrained photoheterotrophic

S3 photohet. on acetate with glyoxylate cycle

S4 photohet. on acetate with CM cycle

S5 photohet. on acetate with EMCoA pathway

S6 anaerobic in the dark

S7 aerobic in the dark


N2_up

0

0

0

0

0

0

0

O2_up

0

0

0

0

0

0

Succ_ex

0

0

0

0

0

0

Prop_ex

0

0

0

0

0

0

Ac_ex

0

0

0

0

0

0

Form_ex

0

0

0

0

0

0

Hydrogen release (H2_ex)

0

0

0

0

0

0

0

Photosynthesis (Photo)

0

0

Calvin cycle (Rubisco)

0

oxidative pentose-phosphate pathway (PGluc::Rl5P)

0

Entner-Doudoroff (PGluc::KDPG)

0

oxidative TCA (AlKG::SuccCoA)

0

0

0

0

reductive TCA (SuccCoA::alKG; AcCoA::Pyr)

0

0

0

0

0

Fumarate reductase (Fum::Succ)

0

Glyoxylate cycle (ICit::SuccGlyox)

0

0

0

CM cycle (CitMal_synth)

0

0

0

EMCoA pathway (HyBuCoA::CrotCoA)

0

0

0


In addition to the listed constraints, the uptake rate of the chosen substrate is set to 1 and all remaining substrate uptake rates are set to zero (not listed in the table). Considered substrates are succinate, malate, fructose (for S1, S2, S6 and S7), propionate (for S1, S2 and S7), and acetate (for S1, S3, S4, S5 and S7). Autotrophic growth (on CO2 and hydrogen mixture) was also considered for S1 and S2.

H├Ądicke et al. BMC Systems Biology 2011 5:150   doi:10.1186/1752-0509-5-150

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