Experiment set8IT073 for Cupriavidus basilensis FW507-4G11

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Carbon source 2-Deoxyadenosine 5-monophosphate 5 mM

Group: carbon source
Media: RCH2_defined_noCarbon + 2-Deoxyadenosine 5-monophosphate (5 mM), pH=7
Culturing: cupriavidus_4G11_ML11, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Adam on 5/2/18
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)
Growth plate: Cup4G11_plate C1

Specific Phenotypes

For 24 genes in this experiment

For carbon source 2-Deoxyadenosine 5-monophosphate in Cupriavidus basilensis FW507-4G11

For carbon source 2-Deoxyadenosine 5-monophosphate across organisms

SEED Subsystems

Subsystem #Specific
Molybdenum cofactor biosynthesis 5
Transport of Molybdenum 3
Purine Utilization 2
Ammonia assimilation 1
Arginine Biosynthesis extended 1
Branched-Chain Amino Acid Biosynthesis 1
Coenzyme B12 biosynthesis 1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 1
Hydantoin metabolism 1
Lysine Biosynthesis DAP Pathway 1
Oxidative stress 1
Photorespiration (oxidative C2 cycle) 1
Purine conversions 1
Thioredoxin-disulfide reductase 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
urate conversion to allantoin I 3 2 2
adenosine nucleotides degradation II 5 4 3
superoxide radicals degradation 2 2 1
methanol oxidation to formaldehyde IV 2 1 1
ureide biosynthesis 7 5 3
molybdenum cofactor biosynthesis 3 3 1
ethanol degradation IV 3 3 1
purine deoxyribonucleosides degradation II 3 1 1
urate conversion to allantoin III 3 1 1
urate conversion to allantoin II 3 1 1
adenine and adenosine salvage V 3 1 1
purine nucleotides degradation II (aerobic) 11 8 3
reactive oxygen species degradation 4 4 1
guanosine nucleotides degradation II 4 3 1
guanosine nucleotides degradation III 4 3 1
inosine 5'-phosphate degradation 4 3 1
adenosine nucleotides degradation I 8 5 2
guanosine nucleotides degradation I 4 2 1
adenine and adenosine salvage III 4 2 1
purine deoxyribonucleosides degradation I 4 1 1
superpathway of purines degradation in plants 18 11 4
purine nucleobases degradation II (anaerobic) 24 16 4
molybdopterin biosynthesis 6 4 1
purine nucleotides degradation I (plants) 12 7 2
superpathway of guanosine nucleotides degradation (plants) 6 3 1
purine ribonucleosides degradation 6 1 1
superpathway of purine deoxyribonucleosides degradation 7 2 1
caffeine degradation III (bacteria, via demethylation) 7 1 1
L-lysine biosynthesis I 9 9 1
theophylline degradation 9 1 1
caffeine degradation IV (bacteria, via demethylation and oxidation) 10 1 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 16 1
aspartate superpathway 25 23 1