Experiment set27S462 for Pseudomonas fluorescens SBW25-INTG

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Vanillic Acid carbon source

Group: carbon source
Media: MME_noCarbon + Vanillic Acid (2 mM)
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C)
By: Andrew Frank on 1/31/23
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM 3-(N-morpholino)propanesulfonic acid, 4.3 mM Sodium Chloride, 10 mM Ammonium chloride, 0.41 mM Magnesium Sulfate Heptahydrate, 0.07 mM Calcium chloride dihydrate, MME Trace Minerals (0.5 mg/L EDTA tetrasodium tetrahydrate salt, 2 mg/L Ferric chloride, 0.05 mg/L Boric Acid, 0.05 mg/L Zinc chloride, 0.03 mg/L copper (II) chloride dihydrate, 0.05 mg/L Manganese (II) chloride tetrahydrate, 0.05 mg/L Diammonium molybdate, 0.05 mg/L Cobalt chloride hexahydrate, 0.05 mg/L Nickel (II) chloride hexahydrate)

Specific Phenotypes

For 11 genes in this experiment

For carbon source Vanillic Acid in Pseudomonas fluorescens SBW25-INTG

For carbon source Vanillic Acid across organisms

SEED Subsystems

Subsystem #Specific
Acetyl-CoA fermentation to Butyrate 1
Alkanesulfonate assimilation 1
Anaerobic respiratory reductases 1
Arginine and Ornithine Degradation 1
Butanol Biosynthesis 1
Isobutyryl-CoA to Propionyl-CoA Module 1
Isoleucine degradation 1
Queuosine-Archaeosine Biosynthesis 1
Taurine Utilization 1
Valine degradation 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
taurine degradation IV 1 1 1
oleate β-oxidation (thioesterase-dependent, yeast) 2 2 1
vanillin and vanillate degradation II 2 2 1
(R)- and (S)-3-hydroxybutanoate biosynthesis (engineered) 5 4 2
L-arginine degradation I (arginase pathway) 3 3 1
L-proline biosynthesis III (from L-ornithine) 3 3 1
L-ornithine biosynthesis II 3 3 1
L-arginine degradation VI (arginase 2 pathway) 4 4 1
L-arginine degradation II (AST pathway) 5 5 1
L-arginine degradation XIII (reductive Stickland reaction) 5 5 1
L-ornithine biosynthesis I 5 5 1
pyruvate fermentation to butanol II (engineered) 6 4 1
superpathway of taurine degradation 6 2 1
L-Nδ-acetylornithine biosynthesis 7 6 1
2-methyl-branched fatty acid β-oxidation 14 11 2
L-citrulline biosynthesis 8 8 1
L-lysine biosynthesis I 9 9 1
L-arginine biosynthesis I (via L-ornithine) 9 9 1
L-arginine biosynthesis III (via N-acetyl-L-citrulline) 9 8 1
L-arginine biosynthesis II (acetyl cycle) 10 10 1
pyruvate fermentation to hexanol (engineered) 11 7 1
superpathway of L-citrulline metabolism 12 10 1
photosynthetic 3-hydroxybutanoate biosynthesis (engineered) 26 19 2
superpathway of arginine and polyamine biosynthesis 17 15 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 16 1
aspartate superpathway 25 22 1
1-butanol autotrophic biosynthesis (engineered) 27 19 1
oleate β-oxidation 35 33 1