Experiment set2IT087 for Agrobacterium fabrum C58
Rhamnogalacturonan - from potato carbon source
Group: carbon sourceMedia: MOPS minimal media_noCarbon + Rhamnogalacturonan - from potato (5 mg/ml)
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 13 genes in this experiment
For carbon source Rhamnogalacturonan - from potato in Agrobacterium fabrum C58
For carbon source Rhamnogalacturonan - from potato across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| D-Galacturonate and D-Glucuronate Utilization | 3 |
| D-galactarate, D-glucarate and D-glycerate catabolism | 1 |
| L-rhamnose utilization | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Pentose and glucuronate interconversions
- Ascorbate and aldarate metabolism
- Starch and sucrose metabolism
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| D-galacturonate degradation II | 5 | 5 | 4 |
| D-glucuronate degradation II | 5 | 5 | 3 |
| D-glucuronate degradation III | 2 | 2 | 1 |
| D-galacturonate degradation III | 2 | 1 | 1 |
| D-glucarate degradation II | 3 | 3 | 1 |
| D-galactarate degradation II | 3 | 3 | 1 |
| superpathway of microbial D-galacturonate and D-glucuronate degradation | 31 | 22 | 6 |