Experiment set1S142 for Synechocystis sp000284455 PCC 6803

growth in full media and 10 mM glucose= photomixotrophic growth

Group: nitrogen source
Media: BG11C + D-Glucose (10 mM)
Culturing: Synechocystis_PCC6803_ML3, flask, 100 rpm orbital shaking, growth chamber, continous light, at 30 (C), shaken=100 rpm
Growth: about 4.0 generations
By: Luis on 1/20/25
Media components: 17.6 mM Sodium nitrate, 0.2 mM Potassium phosphate dibasic, 0.3 mM Magnesium Sulfate Heptahydrate, 0.24 mM Calcium chloride dihydrate, 28.5 uM Citric Acid, 0.006 g/L Ferric ammonium citrate, 2.4 uM EDTA (disodium salt), 0.2 mM Sodium bicarbonate, Trace metal mix A5 (0.00286 g/L Boric Acid, 0.00181 g/L Manganese (II) chloride tetrahydrate, 0.000222 g/L Zinc sulfate heptahydrate, 0.00039 g/L Sodium Molybdate Dihydrate, 7.9e-05 g/L Copper (II) sulfate pentahydrate, 0.0494 mg/L Cobalt(II) nitrate hexahydrate)

Specific Phenotypes

For 12 genes in this experiment

For nitrogen source D-Glucose in Synechocystis sp000284455 PCC 6803

For nitrogen source D-Glucose across organisms

SEED Subsystems

Subsystem	#Specific
Folate Biosynthesis	1
Fructose utilization	1
Glutathione: Non-redox reactions	1
Glycogen metabolism	1
Methylglyoxal Metabolism	1
NAD and NADP cofactor biosynthesis global	1
Pentose phosphate pathway	1
Purine conversions	1
cAMP signaling in bacteria	1

Metabolic Maps

Color code by fitness: see overview map or list of maps.

Maps containing gene(s) with specific phenotypes:

• Biosynthesis of alkaloids derived from shikimate pathway
• Pentose phosphate pathway
• Ubiquinone and menaquinone biosynthesis
• Purine metabolism
• Histidine metabolism
• Tyrosine metabolism
• Tryptophan metabolism
• Benzoxazinone biosynthesis
• Starch and sucrose metabolism
• Pyruvate metabolism
• Naphthalene and anthracene degradation
• Nicotinate and nicotinamide metabolism
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of phenylpropanoids
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
menaquinol-9 biosynthesis	1	1	1
menaquinol-8 biosynthesis	1	1	1
NADP biosynthesis	1	1	1
menaquinol-6 biosynthesis	1	1	1
menaquinol-4 biosynthesis I	1	1	1
NAD phosphorylation and transhydrogenation	2	2	1
menaquinol-7 biosynthesis	2	2	1
menaquinol-13 biosynthesis	2	2	1
menaquinol-12 biosynthesis	2	2	1
menaquinol-10 biosynthesis	2	2	1
menaquinol-11 biosynthesis	2	2	1
guanine and guanosine salvage II	2	1	1
adenine and adenosine salvage I	2	1	1
adenine and adenosine salvage II	2	1	1
guanine and guanosine salvage I	2	1	1
NAD phosphorylation and dephosphorylation	3	2	1
methylglyoxal degradation VIII	3	2	1
methylglyoxal degradation I	3	2	1
adenine salvage	3	1	1
superpathway of guanine and guanosine salvage	3	1	1
glycogen biosynthesis I (from ADP-D-Glucose)	4	4	1
pentose phosphate pathway (non-oxidative branch) I	5	5	1
cytosolic NADPH production (yeast)	5	3	1
mitochondrial NADPH production (yeast)	5	2	1
NAD(P)/NADPH interconversion	6	3	1
superpathway of purine nucleotide salvage	14	11	2
glyphosate degradation III	7	2	1
pentose phosphate pathway	8	8	1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast)	8	4	1
(aminomethyl)phosphonate degradation	8	2	1
superpathway of methylglyoxal degradation	8	2	1
formaldehyde assimilation II (assimilatory RuMP Cycle)	9	7	1
superpathway of menaquinol-8 biosynthesis III	9	1	1
Rubisco shunt	10	10	1
superpathway of menaquinol-10 biosynthesis	10	9	1
superpathway of menaquinol-9 biosynthesis	10	9	1
superpathway of menaquinol-6 biosynthesis	10	9	1
superpathway of menaquinol-7 biosynthesis	10	9	1
superpathway of menaquinol-8 biosynthesis I	10	9	1
superpathway of menaquinol-11 biosynthesis	10	9	1
superpathway of menaquinol-12 biosynthesis	10	9	1
superpathway of menaquinol-13 biosynthesis	10	9	1
starch biosynthesis	10	6	1
superpathway of menaquinol-8 biosynthesis II	10	1	1
formaldehyde assimilation III (dihydroxyacetone cycle)	12	10	1
Bifidobacterium shunt	15	13	1
superpathway of glucose and xylose degradation	17	14	1
superpathway of chorismate metabolism	59	43	1