Experiment set3IT051 for Agrobacterium fabrum C58
D-Lysine nitrogen source
Group: nitrogen sourceMedia: MOPS minimal media_Succinate_noNitrogen + D-Lysine (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 5 genes in this experiment
For nitrogen source D-Lysine in Agrobacterium fabrum C58
For nitrogen source D-Lysine across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Alanine biosynthesis | 1 |
| Biotin biosynthesis | 1 |
| Lipid A modifications | 1 |
| Orphan regulatory proteins | 1 |
| Pyruvate Alanine Serine Interconversions | 1 |
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 |
|---|---|---|---|
| cis-cyclopropane fatty acid (CFA) biosynthesis | 1 | 1 | 1 |
| alanine racemization | 1 | 1 | 1 |
| L-alanine degradation I | 2 | 2 | 1 |
| sterculate biosynthesis | 2 | 1 | 1 |
| anaerobic energy metabolism (invertebrates, cytosol) | 7 | 5 | 1 |
| ansatrienin biosynthesis | 9 | 1 | 1 |
| cyclosporin A biosynthesis | 15 | 2 | 1 |
| superpathway of anaerobic energy metabolism (invertebrates) | 17 | 13 | 1 |
| mycolate biosynthesis | 205 | 21 | 3 |
| superpathway of mycolate biosynthesis | 239 | 22 | 3 |