Metabolic network modeling of redox balancing and biohydrogen production in purple nonsulfur bacteria

BMC Systems Biology

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.

ISSN: 1752-0509