Experiment set27IT021 for Pseudomonas putida KT2440
Caprolactam nitrogen source
Group: nitrogen sourceMedia: MOPS minimal media_Glucose_noNitrogen + Caprolactam (10 mM)
Culturing: Putida_ML5_JBEI, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=200 rpm
By: Mitchell Thompson on 11/8/20
Media components: 10 mM D-Glucose, 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 1.32 mM Potassium phosphate dibasic, 0.01 mM Iron (II) sulfate heptahydrate, 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 9 genes in this experiment
For nitrogen source Caprolactam in Pseudomonas putida KT2440
For nitrogen source Caprolactam across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Cobalt-zinc-cadmium resistance | 3 |
| Hydantoin metabolism | 2 |
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 |
|---|---|---|---|
| 4-aminobutanoate degradation III | 2 | 2 | 1 |
| 4-aminobutanoate degradation II | 2 | 2 | 1 |
| superpathway of 4-aminobutanoate degradation | 3 | 3 | 1 |
| L-lysine degradation IV | 5 | 5 | 1 |
| creatinine degradation II | 5 | 3 | 1 |
| L-lysine degradation X | 6 | 5 | 1 |
| L-lysine degradation III | 6 | 2 | 1 |
| L-lysine degradation I | 7 | 5 | 1 |
| 4-hydroxyphenylacetate degradation | 8 | 2 | 1 |
| TCA cycle IV (2-oxoglutarate decarboxylase) | 9 | 8 | 1 |
| superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation | 11 | 9 | 1 |
| nicotine degradation II (pyrrolidine pathway) | 11 | 6 | 1 |
| superpathway of L-arginine and L-ornithine degradation | 13 | 11 | 1 |
| nicotine degradation I (pyridine pathway) | 17 | 5 | 1 |
| superpathway of L-lysine degradation | 43 | 23 | 1 |