Experiment set2IT042 for Agrobacterium fabrum C58
D-Sorbitol carbon source
Group: carbon sourceMedia: MOPS minimal media_noCarbon + D-Sorbitol (10 mM)
Culturing: Agro_ML11, 24-well transparent microplate; Multitron, Aerobic, at 28 (C), shaken=200 rpm
By: Mitchell Thompson on 10/20/20
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 12 genes in this experiment
For carbon source D-Sorbitol in Agrobacterium fabrum C58
For carbon source D-Sorbitol across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Pentose and glucuronate interconversions
- Pentose phosphate pathway
- Fructose and mannose metabolism
- Starch and sucrose metabolism
- Nucleotide sugars metabolism
- Lipopolysaccharide biosynthesis
- Nicotinate and nicotinamide metabolism
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| xylitol degradation I | 2 | 2 | 1 |
| ribitol degradation I | 2 | 2 | 1 |
| D-arabinose degradation I | 2 | 1 | 1 |
| D-sorbitol degradation I | 3 | 3 | 1 |
| sucrose degradation I (sucrose phosphotransferase) | 3 | 1 | 1 |
| D-arabinose degradation V | 3 | 1 | 1 |
| sucrose degradation IV (sucrose phosphorylase) | 4 | 4 | 1 |
| D-altritol and galactitol degradation | 4 | 4 | 1 |
| sucrose degradation III (sucrose invertase) | 4 | 4 | 1 |
| sucrose degradation VII (sucrose 3-dehydrogenase) | 4 | 2 | 1 |
| sucrose degradation II (sucrose synthase) | 5 | 4 | 1 |
| mannitol cycle | 5 | 4 | 1 |
| heterolactic fermentation | 18 | 12 | 1 |
| superpathway of anaerobic sucrose degradation | 19 | 13 | 1 |
| superpathway of pentose and pentitol degradation | 42 | 16 | 2 |