Experiment set21IT065 for Pseudomonas fluorescens SBW25-INTG
4-Aminobutyric acid 10 mM carbon source
Group: carbon sourceMedia: MME_noNitrogen_noCarbon + 4-Aminobutyric acid (10 mM) + Ammonium chloride (10 mM), pH=7
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=1200 rpm
By: Joshua Elmore on 8-Mar-22
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM 3-(N-morpholino)propanesulfonic acid, 4.3 mM Sodium 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 4 genes in this experiment
For carbon source 4-Aminobutyric acid in Pseudomonas fluorescens SBW25-INTG
For carbon source 4-Aminobutyric acid across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Homogentisate pathway of aromatic compound degradation | 1 |
| Lysine degradation | 1 |
| Salicylate and gentisate catabolism | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Glutamate metabolism
- Alanine and aspartate metabolism
- Lysine degradation
- Tyrosine metabolism
- beta-Alanine metabolism
- Propanoate metabolism
- Styrene degradation
- Butanoate metabolism
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| 4-aminobutanoate degradation III | 2 | 2 | 1 |
| 4-aminobutanoate degradation I | 2 | 2 | 1 |
| 4-aminobutanoate degradation II | 2 | 2 | 1 |
| superpathway of 4-aminobutanoate degradation | 3 | 3 | 1 |
| GABA shunt II | 4 | 3 | 1 |
| GABA shunt I | 4 | 2 | 1 |
| L-lysine degradation IV | 5 | 5 | 1 |
| L-tyrosine degradation I | 5 | 5 | 1 |
| L-lysine degradation X | 6 | 5 | 1 |
| L-lysine degradation III | 6 | 2 | 1 |
| L-lysine degradation I | 7 | 4 | 1 |
| 4-aminobutanoate degradation V | 7 | 3 | 1 |
| superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation | 11 | 7 | 1 |
| superpathway of L-arginine and L-ornithine degradation | 13 | 9 | 1 |
| nicotine degradation I (pyridine pathway) | 17 | 5 | 1 |
| superpathway of L-lysine degradation | 43 | 17 | 1 |