Supplementary material 1

Glycogen

103. 
     (1 / 162) * adpg = (1 / 162) * adp + glycogen
     

Peptidoglycan

104. 
     (2 / 1831) * peptidoglycanunit = peptidoglycan + (2 / 1831) * ala
     

Lipopolysaccharide

105. 
     coefflpsunit*lpsunit = lipopolysacch
     

Biomass

106. 
     qttlipids * lipids + qttglycogen * glycogen + qttpeptidoglycan*peptidoglycan + qttrna * rna + qttprotein * protein + qttdna * dna + qttlps*lipopolysacch =bio
     

ii) Metabolite abbreviations

Abbreviation	Compound
accoa	Acetyl coenzyme A
acetat	Acetat
adp	Adenosine diphosphate
adpg	ADP-glucose
adp-gmh	ADP-glycero-manno-heptose
akg	Alpha-ketoglutarate
ala	Alanine
arg	Arginine
asn	Asparagine
asp	Aspartate
atp	Adenosine triphosphate
bio	Biomass
carp	Carbamoyl-phosphate
cho	Chorismate
cit	Citrate
cmp-kdo	CMP-deoxy-manno-octulosonate
co	Carbon dioxyde
coa	Coenzyme A
ctp	Cytidine triphophate
cys	Cysteine
dap	Meso-diaminopimelate
datp	Deoxyadenosine triphosphate
dctp	Deoxycytidine triphosphate
dgtp	Deoxyguanosine triphosphate
diphosphatidylglycerol	Diphosphatidylglycerol
dna	Deoxyribonucleic acid
dttp	Deoxythymidine triphosphate
eau	Water
eryp	Erythrose 4-phophate
etoh	Ethanol
fad	Flavin adenine dinucleotide
fadh	Flavin adenine dinucleotide (reduced)
format	Formate
frup	Fructose 6-phophate
fum	Fumarate
g3p	Glycerol-3-Phosphate
gap	Glyceraldehyde-3-phophate
gdp	Guanosine diphosphate
glc	Glucose
glcp	Glucose-6-phosphate
glum	Glutamine
glut	Glutamate
glx	glyoxylate
gly	Glycine
glyc	Glycerol
glycogen	Glycogen
gtp	Guanosine triphosphate
h	Proton
hextra	Extracellular proton
his	Histidine
ileu	Isoleucine
imp	Inosine monophosphate
isocit	Isocitrate
isp	Isopentenyl diphosphate
lact	Lactate
lauric	Lauric acid
leu	Leucine
lipid-IVA	Lipid-IVA
lipids	Lipids
lipopolysacch	Lipopolysaccharide
lpsunit	lipid A-Core
lys	Lysine
mal	Malate
met	Methionine
myristic	Myristic acid
nad	Nicotinamide adenine dinucleotide
nadh	Nicotinamide adenine dinucleotide
nadp	Nicotinamide adenine dinucleotide phosphate
nadph	Nicotinamide adenine dinucleotide phosphate
nh	Ammonia
nhextra	Extracellular ammonia
o	Oxygen
oac	Oxaloacetate
p	Phosphate
palmitate	Palmitate
pep	Phosphoenolpyruvate
peptidoglycan	Peptidoglycan
peptidoglycanunit	Peptidoglycan monomer
pextra	Extracellular phosphate
pg	Phosphoglycerate
phe	Phenylalanine
phosphatidate	Phosphatidate
phosphatidylcholine	Phosphatidylcholine
phosphatidylethanolamine	Phosphatidylethanolamine
phosphatidylglycerol	Phosphatidylglycerol
phosphatidylinositol	Phosphatidylinositol
phosphatidylserine	Phosphatidylserine
PO	ratio P/O
pro	Proline
protein	Protein
prpp	5-Phosphoribosyl diphosphate
pyr	Pyruvate
ribop	Ribose 5-phosphate
ribup	Ribulose 5-phosphate
rna	Ribonucleic acid
ser	Serine
so	Sulfate
soextra	Extracellular sulfate
stearate	Stearate
suc	Succinate
succoa	Succinyl coenzyme A
thr	Threonine
try	Tryptophane
tyr	Tyrosine
udp	Uridine diphosphate
udp	Uridine diphosphate
udpg	UDP-glucose
udp-mur	UDP-N-acetylmuramate
udp-nag	UDP-N-acetylglucosamine
udp-nam	UDP-N-acetylmuramate-pentapeptide
udp-sugar	UDP-diacyl-glucosamine
undp	Undecaprenyl phosphate
utp	Uridine triphosphate
val	Valine
xylup	Xylulose 5-phosphate

iii) Symbolic variables

Symbolic variable	Description	Value
coeffala	moles of alanine per gram protein	0.0006930
coeffarg	moles of araginine per gram protein	0.0005109
coeffasn	moles of asparagine per gram protein	0.0004164
coeffasp	moles of aspartate per gram protein	0.0004164
coeffatp	moles of ATP per gram of RNA	0.0007939
coeffctp	moles of CTP per gram of RNA	0.0007059
coeffcys	moles of cysteine per gram protein	0.0001582
coeffdatp	moles of dATP per gram of DNA	0.0007834
coeffdctp	moles of dCTP per gram of DNA	0.0008483
coeffdgtp	moles of dGTP per gram of DNA	0.0007697
coeffdpg	grams of diphosphatidylglycerol per gram of lipids	0.0584732
coeffdttp	moles of dTTP per gram of DNA	0.0008328
coeffglum	moles of glutamine per gram protein	0.0004545
coeffglut	moles of glutamate per gram protein	0.0004545
coeffgly	moles of glycine per gram protein	0.0010582
coeffgtp	moles of GTP per gram of ARN	0.0009335
coeffhis	moles of histidine per gram protein	0.0001636
coeffileu	moles of isoleucine per gram protein	0.0005018
coeffleu	moles of leucine per gram protein	0.0007782
coefflpsunit	moles of lipopolysaccharide unit per gram lipopolysaccharides	0.0002294
coefflys	moles of lysine per gram protein	0.0005927
coeffmet	moles of methionine per gram protein	0.0002655
coeffpa	grams of phosphatidate per gram of lipids	0
coeffpaldpg	moles of palmitate per gram of diphosphatidylglycerol	0.0022489
coeffpalep	moles of palmitate per gram of episterolester	0
coeffpaler	moles of palmitate per gram of ergosterolester	0
coeffpalfe	moles of palmitate per gram of fecosterolester	0
coeffpalla	moles of palmitate per gram of lanosterolester	0
coeffpalpa	moles of palmitate per gram of phosphatidate	0
coeffpalpc	moles of palmitate per gram of phosphatidylcholine	0
coeffpalpe	moles of palmitate per gram of phosphatidylethanolamine	0.0020267
coeffpalpg	moles of palmitate per gram of phosphatidylglycerol	0.0020321
coeffpalpi	moles of palmitate per gram of phosphatidylinositol	0
coeffpalps	moles of palmitate per gram of phosphatidylserine	0
coeffpalzy	moles of palmitate per gram of zymosterol	0
coeffpc	grams of phosphatidylcholine per gram of lipids	0
coeffpe	grams of phosphatidylethanolamine per gram of lipids	0.7357878
coeffpg	grams of phosphatidylglycerol per gram of lipids	0.2057390
coeffphe	mole of phenylalanine per gram protein	0.0003200
coeffpi	grams of phosphatidylinositol per gram	0
coeffpro	moles of proline per gram of protein	0.0003818
coeffps	grams of phosphatidylserine per gram of lipids	0
coeffser	moles of serine per gram protein	0.0003727
coeffstedpg	moles of stearate per gram of diphosphatidylglycerol	0.0007102
coeffsteep	moles of stearate per gram of episterolester	0
coeffsteer	moles of stearate per gram of ergosterolester	0
coeffstefe	moles of stearate per gram of fecosterolester	0
coeffstela	moles of stearate per gram of lanosterolester	0
coeffstepa	moles of stearate per gram of phosphatidate	0
coeffstepc	moles of stearate per gram of phosphatidylcholine	0
coeffstepe	moles of stearate per gram of phosphatidylethanolamine	0.0006400
coeffstepg	moles of stearate per gram of phosphatidylglycerol	0.0006417
coeffstepi	moles of stearate per gram of phosphatidylinositol	0
coeffsteps	moles of stearate per gram of phosphatidylserines	0
coeffstezy	moles of stearate per gram of zymosterolester	0
coeffthr	moles of threonine per gram protein	0.0004382
coefftry	moles of tryptophane per gram protein	0.0000982
coefftyr	moles of tyrosine per gram protein	0.0002382
coeffutp	moles of UTP per gram of RNA	0.0006515
coeffval	moles of valine per gram protein	0.0007309
PO	ratio P/O	1.49
qttdna	grams of DNA per gram of biomass	0.0165183
qttglycogen	grams of glycogen per gram of biomass	0.0058994
qttlipids	grams of lipids per gram of biomass	0.1380457
qttlps	grams of lipopolysaccharides per gram of biomass	0.0080446
qttpeptidoglycan	grams of peptidoglycan per gram of biomass	0.0058994
qttprotein	grams of protein per gram of biomass	0.7166148
qttrna	grams of RNA per gram of biomass	0.1089778