Experiment set2IT043 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:
- Fructose and mannose metabolism
- Pentose and glucuronate interconversions
- Nucleotide sugars metabolism
- Pentose phosphate pathway
- Ascorbate and aldarate metabolism
- C21-Steroid hormone metabolism
- Glycine, serine and threonine metabolism
- Bisphenol A degradation
- Starch and sucrose metabolism
- Polyketide sugar unit biosynthesis
- Aminosugars metabolism
- Lipopolysaccharide biosynthesis
- Linoleic acid metabolism
- Tetrachloroethene degradation
- Benzoate degradation via CoA ligation
- Butanoate metabolism
- Nicotinate and nicotinamide metabolism
- Retinol metabolism
- Alkaloid biosynthesis I
- Insect hormone biosynthesis
- Biosynthesis of unsaturated fatty acids
- Biosynthesis of type II polyketide products
- Biosynthesis of alkaloids derived from shikimate pathway
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| ribitol degradation I | 2 | 2 | 1 |
| xylitol degradation I | 2 | 2 | 1 |
| D-arabinose degradation I | 2 | 1 | 1 |
| mannitol cycle | 5 | 4 | 2 |
| D-sorbitol degradation I | 3 | 3 | 1 |
| sucrose degradation I (sucrose phosphotransferase) | 3 | 1 | 1 |
| D-arabinose degradation V | 3 | 1 | 1 |
| D-altritol and galactitol degradation | 4 | 4 | 1 |
| sucrose degradation III (sucrose invertase) | 4 | 4 | 1 |
| sucrose degradation IV (sucrose phosphorylase) | 4 | 4 | 1 |
| sucrose degradation VII (sucrose 3-dehydrogenase) | 4 | 2 | 1 |
| sucrose degradation II (sucrose synthase) | 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 |