Experiment set3IT018 for Pseudomonas simiae WCS417

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Inosine carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + Inosine (12.5 mM), pH=7
Culturing: fluoroDangl_ML3, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
By: Mark on 2/18/2015
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 30 mM PIPES sesquisodium salt, 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 10 genes in this experiment

For carbon source Inosine in Pseudomonas simiae WCS417

For carbon source Inosine across organisms

SEED Subsystems

Subsystem #Specific
Purine Utilization 4
Allantoin Utilization 2
Molybdenum cofactor biosynthesis 2
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
adenosine nucleotides degradation II 5 5 2
allantoin degradation to glyoxylate I 3 2 1
urate conversion to allantoin I 3 2 1
ureide biosynthesis 7 6 2
inosine 5'-phosphate degradation 4 4 1
guanosine nucleotides degradation III 4 4 1
guanosine nucleotides degradation II 4 4 1
adenosine nucleotides degradation I 8 7 2
glycolate and glyoxylate degradation I 4 3 1
guanosine nucleotides degradation I 4 3 1
superpathway of allantoin degradation in plants 8 4 2
superpathway of purines degradation in plants 18 14 4
allantoin degradation to glyoxylate II 5 1 1
allantoin degradation to glyoxylate III 5 1 1
purine nucleotides degradation II (aerobic) 11 11 2
purine nucleotides degradation I (plants) 12 10 2
superpathway of guanosine nucleotides degradation (plants) 6 5 1
purine nucleobases degradation II (anaerobic) 24 16 4
superpathway of allantoin degradation in yeast 6 4 1
superpathway of glycol metabolism and degradation 7 5 1
caffeine degradation III (bacteria, via demethylation) 7 1 1
theophylline degradation 9 1 1
caffeine degradation IV (bacteria, via demethylation and oxidation) 10 1 1