Experiment set1IT059 for Agrobacterium fabrum C58
D-Ribose carbon source
Group: carbon sourceMedia: MOPS minimal media_noCarbon + D-Ribose (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 7 genes in this experiment
For carbon source D-Ribose in Agrobacterium fabrum C58
For carbon source D-Ribose across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| D-ribose utilization | 2 |
| Deoxyribose and Deoxynucleoside Catabolism | 2 |
| Ribitol, Xylitol, Arabitol, Mannitol and Sorbitol utilization | 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 |
|---|---|---|---|
| ribose phosphorylation | 2 | 1 | 1 |
| D-galactarate degradation II | 3 | 3 | 1 |
| 2-deoxy-D-ribose degradation I | 3 | 2 | 1 |
| D-galactarate degradation I | 4 | 2 | 1 |
| superpathway of D-glucarate and D-galactarate degradation | 5 | 3 | 1 |
| superpathway of microbial D-galacturonate and D-glucuronate degradation | 31 | 22 | 1 |