Experiment set5IT076 for Pseudomonas fluorescens FW300-N2C3

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Putrescine Dihydrochloride carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + Putrescine Dihydrochloride (20 mM), pH=7
Culturing: pseudo5_N2-C3_1_ML2, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
By: Mark on 12/17/2014
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 13 genes in this experiment

For carbon source Putrescine Dihydrochloride in Pseudomonas fluorescens FW300-N2C3

For carbon source Putrescine Dihydrochloride across organisms

SEED Subsystems

Subsystem #Specific
Cobalt-zinc-cadmium resistance 1
Polyamine Metabolism 1
Pyruvate Alanine Serine Interconversions 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
ethanol degradation I 2 2 2
L-glutamine biosynthesis I 1 1 1
acetaldehyde biosynthesis I 1 1 1
L-lactaldehyde degradation (anaerobic) 1 1 1
putrescine degradation II 4 4 3
pyruvate fermentation to ethanol III 3 2 2
pyruvate fermentation to ethanol I 3 2 2
ethylene glycol degradation 2 2 1
4-aminobutanoate degradation III 2 2 1
L-threonine degradation IV 2 2 1
putrescine degradation V 2 2 1
β-alanine degradation II 2 2 1
ammonia assimilation cycle I 2 2 1
ammonia assimilation cycle II 2 2 1
4-aminobutanoate degradation II 2 2 1
pyruvate fermentation to ethanol II 2 1 1
4-aminobutanoate degradation I 2 1 1
ethanolamine utilization 5 5 2
acetylene degradation (anaerobic) 5 4 2
superpathway of ornithine degradation 8 8 3
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation 11 10 4
ethanol degradation II 3 3 1
superpathway of ammonia assimilation (plants) 3 3 1
ammonia assimilation cycle III 3 3 1
L-leucine degradation III 3 2 1
L-aspartate degradation II (aerobic) 3 2 1
L-aspartate degradation III (anaerobic) 3 2 1
L-valine degradation II 3 2 1
2-deoxy-D-ribose degradation I 3 2 1
L-isoleucine degradation II 3 2 1
2-hydroxypenta-2,4-dienoate degradation 3 2 1
superpathway of 4-aminobutanoate degradation 3 2 1
2-aminoethylphosphonate degradation I 3 1 1
sulfoacetaldehyde degradation IV 3 1 1
L-methionine degradation III 3 1 1
2-deoxy-α-D-ribose 1-phosphate degradation 3 1 1
superpathway of L-arginine and L-ornithine degradation 13 12 4
phytol degradation 4 3 1
L-tyrosine degradation III 4 2 1
L-phenylalanine degradation III 4 2 1
GABA shunt II 4 2 1
salidroside biosynthesis 4 2 1
GABA shunt I 4 1 1
superpathway of fermentation (Chlamydomonas reinhardtii) 9 5 2
pyruvate fermentation to isobutanol (engineered) 5 4 1
catechol degradation I (meta-cleavage pathway) 5 2 1
phenylethanol biosynthesis 5 2 1
(S)-propane-1,2-diol degradation 5 2 1
β-alanine biosynthesis II 6 5 1
nucleoside and nucleotide degradation (halobacteria) 6 3 1
superpathway of pyrimidine deoxyribonucleosides degradation 6 3 1
triethylamine degradation 6 1 1
noradrenaline and adrenaline degradation 13 8 2
superpathway of Clostridium acetobutylicum solventogenic fermentation 13 5 2
superpathway of glycol metabolism and degradation 7 7 1
L-glutamate and L-glutamine biosynthesis 7 6 1
3-methylbutanol biosynthesis (engineered) 7 6 1
superpathway of purine deoxyribonucleosides degradation 7 5 1
serotonin degradation 7 4 1
catechol degradation II (meta-cleavage pathway) 7 3 1
4-aminobutanoate degradation V 7 2 1
toluene degradation V (aerobic) (via toluene-cis-diol) 7 2 1
toluene degradation I (aerobic) (via o-cresol) 7 2 1
mixed acid fermentation 16 12 2
3-phenylpropanoate and 3-(3-hydroxyphenyl)propanoate degradation 8 4 1
butanol and isobutanol biosynthesis (engineered) 8 3 1
p-cumate degradation 8 2 1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation 17 7 2
heterolactic fermentation 18 16 2
hexitol fermentation to lactate, formate, ethanol and acetate 19 15 2
L-arginine biosynthesis II (acetyl cycle) 10 10 1
superpathway of coenzyme A biosynthesis II (plants) 10 9 1
meta cleavage pathway of aromatic compounds 10 3 1
superpathway of N-acetylneuraminate degradation 22 15 2
p-cymene degradation 11 3 1
superpathway of fucose and rhamnose degradation 12 5 1
naphthalene degradation to acetyl-CoA 12 3 1
L-tryptophan degradation IX 12 2 1
L-tryptophan degradation XII (Geobacillus) 12 2 1
toluene degradation IV (aerobic) (via catechol) 13 4 1
L-tryptophan degradation V (side chain pathway) 13 1 1
nicotine degradation I (pyridine pathway) 17 7 1
superpathway of L-threonine metabolism 18 13 1
mandelate degradation to acetyl-CoA 18 7 1
superpathway of anaerobic sucrose degradation 19 15 1
superpathway of aerobic toluene degradation 30 12 1
superpathway of aromatic compound degradation via 3-oxoadipate 35 14 1
superpathway of aromatic compound degradation via 2-hydroxypentadienoate 42 11 1