Experiment set2IT064 for Pseudomonas fluorescens FW300-N2C3

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Ethanol carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + Ethanol (20 mM), pH=7.2
Culturing: pseudo5_N2-C3_1_ML2, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 4.3 generations
By: Jayashree on 6/12/2014
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 18 genes in this experiment

For carbon source Ethanol in Pseudomonas fluorescens FW300-N2C3

For carbon source Ethanol across organisms

SEED Subsystems

Subsystem #Specific
Ammonia assimilation 1
Cobalt-zinc-cadmium resistance 1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 1
Ketoisovalerate oxidoreductase 1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate 1
Ribosome biogenesis bacterial 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-glutamate biosynthesis I 2 2 2
acetate conversion to acetyl-CoA 1 1 1
L-lactaldehyde degradation (anaerobic) 1 1 1
acetaldehyde biosynthesis I 1 1 1
L-glutamine degradation I 1 1 1
L-glutamine degradation II 1 1 1
acetate and ATP formation from acetyl-CoA III 1 1 1
ammonia assimilation cycle III 3 3 2
ethanol degradation II 3 3 2
pyruvate fermentation to ethanol III 3 2 2
pyruvate fermentation to ethanol I 3 2 2
L-threonine degradation IV 2 2 1
ethylene glycol degradation 2 2 1
pyruvate fermentation to ethanol II 2 1 1
ethanolamine utilization 5 5 2
acetylene degradation (anaerobic) 5 4 2
ethanol degradation IV 3 3 1
superpathway of acetate utilization and formation 3 3 1
2-deoxy-D-ribose degradation I 3 2 1
L-leucine degradation III 3 2 1
ethanol degradation III 3 2 1
L-isoleucine biosynthesis V 3 2 1
L-valine degradation II 3 2 1
L-isoleucine degradation II 3 2 1
2-hydroxypenta-2,4-dienoate degradation 3 2 1
2-deoxy-α-D-ribose 1-phosphate degradation 3 1 1
L-methionine degradation III 3 1 1
sulfoacetaldehyde degradation IV 3 1 1
2-aminoethylphosphonate degradation I 3 1 1
L-glutamate and L-glutamine biosynthesis 7 6 2
glutaminyl-tRNAgln biosynthesis via transamidation 4 4 1
L-asparagine biosynthesis III (tRNA-dependent) 4 4 1
phytol degradation 4 3 1
L-tyrosine degradation III 4 2 1
chitin deacetylation 4 2 1
L-phenylalanine degradation III 4 2 1
salidroside biosynthesis 4 2 1
superpathway of fermentation (Chlamydomonas reinhardtii) 9 5 2
2-methylcitrate cycle I 5 5 1
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
2-methylcitrate cycle II 6 5 1
L-isoleucine biosynthesis IV 6 4 1
superpathway of pyrimidine deoxyribonucleosides degradation 6 3 1
nucleoside and nucleotide degradation (halobacteria) 6 3 1
superpathway of bitter acids biosynthesis 18 3 3
lupulone and humulone biosynthesis 6 1 1
triethylamine degradation 6 1 1
adlupulone and adhumulone biosynthesis 6 1 1
colupulone and cohumulone biosynthesis 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
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
toluene degradation I (aerobic) (via o-cresol) 7 2 1
toluene degradation V (aerobic) (via toluene-cis-diol) 7 2 1
mixed acid fermentation 16 12 2
L-citrulline biosynthesis 8 6 1
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
reductive glycine pathway of autotrophic CO2 fixation 9 5 1
cis-geranyl-CoA degradation 9 3 1
hexitol fermentation to lactate, formate, ethanol and acetate 19 15 2
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 L-citrulline metabolism 12 8 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
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