Experiment set3IT030 for Agrobacterium fabrum C58
3-aminobutyric acid nitrogen source
Group: nitrogen sourceMedia: MOPS minimal media_Succinate_noNitrogen + 3-aminobutyric 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 9 genes in this experiment
For nitrogen source 3-aminobutyric acid in Agrobacterium fabrum C58
For nitrogen source 3-aminobutyric acid across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Pyruvate Alanine Serine Interconversions | 3 |
| Alanine biosynthesis | 1 |
| Respiratory dehydrogenases 1 | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Alanine and aspartate metabolism
- Fatty acid biosynthesis
- Urea cycle and metabolism of amino groups
- Valine, leucine and isoleucine degradation
- Arginine and proline metabolism
- Phenylalanine metabolism
- beta-Alanine metabolism
- D-Alanine metabolism
- Propanoate metabolism
- Nitrogen metabolism
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-alanine degradation I | 2 | 2 | 2 |
| alanine racemization | 1 | 1 | 1 |
| β-alanine degradation II | 2 | 2 | 1 |
| urea degradation I | 3 | 3 | 1 |
| biotin-carboxyl carrier protein assembly | 4 | 4 | 1 |
| β-alanine biosynthesis II | 6 | 3 | 1 |
| superpathway of allantoin degradation in yeast | 6 | 3 | 1 |
| anaerobic energy metabolism (invertebrates, cytosol) | 7 | 5 | 1 |
| ansatrienin biosynthesis | 9 | 1 | 1 |
| superpathway of coenzyme A biosynthesis II (plants) | 10 | 7 | 1 |
| 3-hydroxypropanoate cycle | 13 | 8 | 1 |
| glyoxylate assimilation | 13 | 5 | 1 |
| cyclosporin A biosynthesis | 15 | 2 | 1 |
| superpathway of anaerobic energy metabolism (invertebrates) | 17 | 13 | 1 |
| 3-hydroxypropanoate/4-hydroxybutanate cycle | 18 | 11 | 1 |
| superpathway of the 3-hydroxypropanoate cycle | 18 | 8 | 1 |