Experiment set3IT068 for Agrobacterium fabrum C58
L-Proline nitrogen source
Group: nitrogen sourceMedia: MOPS minimal media_Succinate_noNitrogen + L-Proline (10 mM)
Culturing: Agro_ML11, 24-well transparent microplate; Multitron, Aerobic, at 28 (C), shaken=200 rpm
By: Mitchell Thompson on 11/20/20
Media components: 10 mM Sodium succinate dibasic hexahydrate, 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 10 genes in this experiment
For nitrogen source L-Proline in Agrobacterium fabrum C58
For nitrogen source L-Proline across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Arginine and proline metabolism
- Glutamate metabolism
- Puromycin biosynthesis
- Nucleotide sugars metabolism
- alpha-Linolenic acid metabolism
- Trinitrotoluene degradation
- Porphyrin and chlorophyll metabolism
- Carotenoid biosynthesis - General
- Nitrogen metabolism
- Alkaloid biosynthesis I
- Insect hormone biosynthesis
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-glutamate degradation I | 1 | 1 | 1 |
| L-proline degradation I | 3 | 3 | 2 |
| proline to cytochrome bo oxidase electron transfer | 2 | 2 | 1 |
| L-alanine degradation II (to D-lactate) | 3 | 3 | 1 |
| L-arginine degradation I (arginase pathway) | 3 | 2 | 1 |
| ethene biosynthesis IV (engineered) | 3 | 1 | 1 |
| ethene biosynthesis II (microbes) | 4 | 1 | 1 |
| (5R)-carbapenem carboxylate biosynthesis | 6 | 1 | 1 |
| L-Nδ-acetylornithine biosynthesis | 7 | 5 | 1 |
| 4-aminobutanoate degradation V | 7 | 2 | 1 |
| L-glutamate degradation XI (reductive Stickland reaction) | 7 | 1 | 1 |
| L-citrulline biosynthesis | 8 | 7 | 1 |
| L-glutamate degradation V (via hydroxyglutarate) | 10 | 4 | 1 |
| superpathway of L-citrulline metabolism | 12 | 9 | 1 |
| methylaspartate cycle | 19 | 12 | 1 |