Experiment set3IT090 for Agrobacterium fabrum C58
L-pyroglutamic acid nitrogen source
Group: nitrogen sourceMedia: MOPS minimal media_Succinate_noNitrogen + L-pyroglutamic acid (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 7 genes in this experiment
For nitrogen source L-pyroglutamic acid in Agrobacterium fabrum C58
For nitrogen source L-pyroglutamic acid across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Orphan regulatory proteins | 2 |
| Glutamate dehydrogenases | 1 |
| Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis | 1 |
| Lipid A modifications | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Arginine and proline metabolism
- Fatty acid biosynthesis
- Urea cycle and metabolism of amino groups
- Glutamate metabolism
- Nitrogen metabolism
- Sulfur metabolism
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-glutamate degradation I | 1 | 1 | 1 |
| L-alanine degradation II (to D-lactate) | 3 | 3 | 1 |
| urea degradation I | 3 | 3 | 1 |
| ethene biosynthesis IV (engineered) | 3 | 1 | 1 |
| biotin-carboxyl carrier protein assembly | 4 | 4 | 1 |
| superpathway of allantoin degradation in yeast | 6 | 3 | 1 |
| 4-aminobutanoate degradation V | 7 | 2 | 1 |
| L-glutamate degradation XI (reductive Stickland reaction) | 7 | 1 | 1 |
| L-glutamate degradation V (via hydroxyglutarate) | 10 | 4 | 1 |
| 3-hydroxypropanoate cycle | 13 | 8 | 1 |
| glyoxylate assimilation | 13 | 5 | 1 |
| 3-hydroxypropanoate/4-hydroxybutanate cycle | 18 | 11 | 1 |
| superpathway of the 3-hydroxypropanoate cycle | 18 | 8 | 1 |
| methylaspartate cycle | 19 | 12 | 1 |