Experiment set2S552 for Synechocystis sp000284455 PCC 6803

Compare to:

medium light; bubbling

Group: light_bubbling
Media: BG11C
Culturing: Synechocystis_PCC6803_ML3, vertical flask, 1% CO2 enriched air bubling, growth chamber, continous light, at 30 (C), shaken=100 rpm
By: Luis on 6/30/25
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 18 genes in this experiment

SEED Subsystems

Subsystem #Specific
Bacterial hemoglobins 1
DNA repair, UvrABC system 1
Iron acquisition in Vibrio 1
Peptidoglycan Biosynthesis 1
Protein chaperones 1
Proteolysis in bacteria, ATP-dependent 1
Sialic Acid Metabolism 1
Transport of Iron 1
UDP-N-acetylmuramate from Fructose-6-phosphate Biosynthesis 1
tRNA aminoacylation, Asp and Asn 1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
UDP-α-D-glucose biosynthesis 2 1 1
GDP-α-D-glucose biosynthesis 3 2 1
trehalose degradation V 3 2 1
glycogen biosynthesis I (from ADP-D-Glucose) 4 4 1
sucrose degradation IV (sucrose phosphorylase) 4 3 1
starch degradation V 4 3 1
starch degradation III 4 2 1
5,5'-dehydrodivanillate degradation 4 1 1
2-amino-3-carboxymuconate semialdehyde degradation to 2-hydroxypentadienoate 4 1 1
dTDP-β-L-rhamnose biosynthesis 5 5 1
glucosylglycerol biosynthesis 5 5 1
UDP-N-acetyl-D-glucosamine biosynthesis I 5 5 1
CDP-6-deoxy-D-gulose biosynthesis 5 3 1
glucose and glucose-1-phosphate degradation 5 3 1
sucrose degradation II (sucrose synthase) 5 3 1
D-galactose degradation I (Leloir pathway) 5 2 1
2-amino-3-carboxymuconate semialdehyde degradation to glutaryl-CoA 5 1 1
protein O-mannosylation III (mammals, core M3) 5 1 1
protein O-mannosylation II (mammals, core M1 and core M2) 5 1 1
O-antigen building blocks biosynthesis (E. coli) 11 10 2
glycogen degradation II 6 4 1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis 6 3 1
peptidoglycan maturation (meso-diaminopimelate containing) 12 4 2
2-nitrobenzoate degradation I 7 1 1
glycogen degradation I 8 7 1
sucrose biosynthesis II 8 7 1
glycogen biosynthesis III (from α-maltose 1-phosphate) 8 2 1
protein O-mannosylation I (yeast) 8 1 1
sucrose biosynthesis I (from photosynthesis) 9 8 1
chitin biosynthesis 9 5 1
starch biosynthesis 10 6 1
CMP-legionaminate biosynthesis I 10 2 1
colanic acid building blocks biosynthesis 11 10 1
protein N-glycosylation (Haloferax volcanii) 11 1 1
L-tryptophan degradation IX 12 2 1
L-tryptophan degradation XII (Geobacillus) 12 2 1
peptidoglycan recycling I 14 9 1
L-tryptophan degradation III (eukaryotic) 15 3 1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis 33 13 2
peptidoglycan biosynthesis II (staphylococci) 17 12 1
peptidoglycan biosynthesis IV (Enterococcus faecium) 17 12 1
streptomycin biosynthesis 18 2 1
superpathway of anaerobic sucrose degradation 19 14 1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis 19 6 1
protein N-glycosylation initial phase (eukaryotic) 19 1 1
tRNA charging 21 20 1
L-tryptophan degradation XI (mammalian, via kynurenine) 23 5 1
superpathway of UDP-N-acetylglucosamine-derived O-antigen building blocks biosynthesis 24 6 1
colibactin biosynthesis 38 7 1