Experiment set67S85 for Escherichia coli BW25113

Compare to:

Uridine 0.4095 mM carbon source

Group: carbon source
Media: Chakraborty_Basal + Uridine (0.4095 mM), pH=7
Culturing: Keio_ML9a, tube, Aerobic, at 29 (C), shaken=200 rpm
By: Bri Finley on 9/16/24
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 0.3792 g/L Sodium phosphate monobasic, 0.9713 g/L Disodium phosphate, Wolfe's mineral mix (0.03 g/L Magnesium Sulfate Heptahydrate, 0.015 g/L Nitrilotriacetic acid, 0.01 g/L Sodium Chloride, 0.005 g/L Manganese (II) sulfate monohydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc sulfate heptahydrate, 0.001 g/L Calcium chloride dihydrate, 0.001 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.0002 g/L Aluminum potassium sulfate dodecahydrate, 0.0001 g/L Copper (II) sulfate pentahydrate, 0.0001 g/L Boric Acid, 0.0001 g/L Sodium Molybdate Dihydrate, 0.003 mg/L Sodium selenite pentahydrate), Wolfe's vitamin mix (0.1 mg/L Pyridoxine HCl, 0.05 mg/L 4-Aminobenzoic acid, 0.05 mg/L Lipoic acid, 0.05 mg/L Nicotinic Acid, 0.05 mg/L Riboflavin, 0.05 mg/L Thiamine HCl, 0.05 mg/L calcium pantothenate, 0.02 mg/L biotin, 0.02 mg/L Folic Acid, 0.001 mg/L Cyanocobalamin)

Specific Phenotypes

For 19 genes in this experiment

For carbon source Uridine in Escherichia coli BW25113

For carbon source Uridine across organisms

SEED Subsystems

Subsystem #Specific
Curli production 4
CytR regulation 1
DNA-binding regulatory proteins, strays 1
Deoxyribose and Deoxynucleoside Catabolism 1
Glycolate, glyoxylate interconversions 1
Photorespiration (oxidative C2 cycle) 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
glycolate and glyoxylate degradation II 2 2 1
pyrimidine ribonucleosides degradation 2 2 1
superpathway of pyrimidine deoxyribonucleosides degradation 6 6 2
pyrimidine deoxyribonucleosides degradation 3 3 1
2-deoxy-α-D-ribose 1-phosphate degradation 3 3 1
glycolate and glyoxylate degradation III 3 1 1
glycolate and glyoxylate degradation I 4 4 1
superpathway of pyrimidine ribonucleosides degradation 5 4 1
purine ribonucleosides degradation 6 6 1
superpathway of glycol metabolism and degradation 7 7 1
superpathway of purine deoxyribonucleosides degradation 7 7 1
photorespiration I 9 5 1
photorespiration III 9 5 1
L-lysine degradation V 9 2 1
photorespiration II 10 6 1
nucleoside and nucleotide degradation (archaea) 10 4 1
superpathway of L-lysine degradation 43 14 1