Experiment set1IT054 for Agrobacterium fabrum C58
L-Arabinose carbon source
Group: carbon sourceMedia: MOPS minimal media_noCarbon + L-Arabinose (10 mM)
Culturing: Agro_ML11, 24-well transparent microplate; Multitron, Aerobic, at 28 (C), shaken=200 rpm
By: Mitchell Thompson on 8/25/20
Media components: 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 1.32 mM Potassium phosphate dibasic, 0.01 mM Iron (II) sulfate heptahydrate, 9.5 mM Ammonium chloride, 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 carbon source L-Arabinose in Agrobacterium fabrum C58
For carbon source L-Arabinose across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Galactose metabolism
- Ascorbate and aldarate metabolism
- Lysine degradation
- Peptidoglycan biosynthesis
- Biotin metabolism
- Caprolactam degradation
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| D-galactose degradation II | 2 | 2 | 1 |
| pyruvate fermentation to acetate VIII | 2 | 1 | 1 |
| D-glucarate degradation II | 3 | 3 | 1 |
| D-galactarate degradation II | 3 | 3 | 1 |
| L-carnitine degradation II | 3 | 2 | 1 |
| L-lyxonate degradation | 3 | 1 | 1 |
| superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) | 8 | 6 | 2 |
| 1,2-dichloroethane degradation | 4 | 3 | 1 |
| trans-4-hydroxy-L-proline degradation II | 4 | 2 | 1 |
| tRNA processing | 10 | 10 | 2 |
| D-galacturonate degradation II | 5 | 5 | 1 |
| D-glucuronate degradation II | 5 | 5 | 1 |
| cytosolic NADPH production (yeast) | 5 | 4 | 1 |
| mitochondrial NADPH production (yeast) | 5 | 3 | 1 |
| D-xylose degradation III | 5 | 2 | 1 |
| D-xylose degradation V | 5 | 2 | 1 |
| D-arabinose degradation III | 6 | 3 | 1 |
| L-arabinose degradation III | 6 | 2 | 1 |
| superpathway of pentose and pentitol degradation | 42 | 16 | 2 |
| superpathway of microbial D-galacturonate and D-glucuronate degradation | 31 | 22 | 1 |