Experiment set39IT043 for Pseudomonas putida KT2440

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DL-3-Hydroxyisobutyric acid sodium salt carbon source

Group: carbon source
Media: MOPS minimal media_noCarbon + DL-3-Hydroxyisobutyric acid sodium salt (10 mM)
Culturing: Putida_ML5_JBEI, 24-well plate, Aerobic, at 30 (C), shaken=200 rpm
By: Allie Pearson on 28-Sep
Media components: 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 1.32 mM Potassium phosphate dibasic, 0.01 mM Iron (II) sulfate heptahydrate, 9.5 mM Ammonium chloride, 0.276 mM Aluminum potassium sulfate dodecahydrate, 0.0005 mM Calcium chloride, 0.525 mM Magnesium chloride hexahydrate, 50 mM Sodium Chloride, 3e-09 M Ammonium heptamolybdate tetrahydrate, 4e-07 M Boric Acid, 3e-08 M Cobalt chloride hexahydrate, 1e-08 M Copper (II) sulfate pentahydrate, 8e-08 M Manganese (II) chloride tetrahydrate, 1e-08 M Zinc sulfate heptahydrate

Specific Phenotypes

For 10 genes in this experiment

For carbon source DL-3-Hydroxyisobutyric acid sodium salt in Pseudomonas putida KT2440

For carbon source DL-3-Hydroxyisobutyric acid sodium salt across organisms

SEED Subsystems

Subsystem #Specific
Isobutyryl-CoA to Propionyl-CoA Module 3
Valine degradation 3
Choline and Betaine Uptake and Betaine Biosynthesis 1
DNA-binding regulatory proteins, strays 1
Flavodoxin 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
β-alanine degradation II 2 2 2
glycine betaine biosynthesis I (Gram-negative bacteria) 2 2 1
glycine betaine biosynthesis II (Gram-positive bacteria) 2 2 1
choline degradation I 2 2 1
β-alanine degradation I 2 1 1
choline-O-sulfate degradation 3 3 1
L-valine degradation I 8 6 2
propanoyl-CoA degradation II 5 3 1
acrylate degradation I 5 3 1
β-alanine biosynthesis II 6 5 1
myo-inositol degradation I 7 1 1
2,4-dinitrotoluene degradation 7 1 1
superpathway of coenzyme A biosynthesis II (plants) 10 9 1
myo-, chiro- and scyllo-inositol degradation 10 1 1