Experiment set9S162 for Phocaeicola vulgatus CL09T03C04
D-Glucose 5 mg/ml carbon source
Group: carbon sourceMedia: Varel_Bryant_medium + D-Glucose (5 mg/ml)
Culturing: Bvulgatus_CL09T03C04_ML5, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 37 (C), shaken=0 rpm
By: Surya Tripathi on 3/20/24
Media components: 15 uM Hemin, 134 uM L-Methionine, 15 uM Iron (II) sulfate heptahydrate, 8.25 mM L-Cysteine, 23.8 mM Sodium bicarbonate, Mineral 3B solution (6.6 mM Potassium phosphate monobasic, 15.4 mM Sodium Chloride, 98 uM Magnesium chloride hexahydrate, 176.5 uM Calcium chloride dihydrate, 4.2 uM Cobalt chloride hexahydrate, 50.5 uM Manganese (II) chloride tetrahydrate, 9.3 mM Ammonium chloride, 1.75 mM Sodium sulfate)
Specific Phenotypes
For 11 genes in this experiment
For carbon source D-Glucose in Phocaeicola vulgatus CL09T03C04
For carbon source D-Glucose across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Chitin and N-acetylglucosamine utilization | 1 |
| Iron acquisition in Vibrio | 1 |
| N-Acetyl-Galactosamine and Galactosamine Utilization | 1 |
| Oxidative stress | 1 |
| Ton and Tol transport systems | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Other glycan degradation
- Nucleotide sugars metabolism
- Aminosugars metabolism
- Glycosaminoglycan degradation
- Glycosphingolipid biosynthesis - globo series
- Glycosphingolipid biosynthesis - ganglio series
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| superoxide radicals degradation | 2 | 1 | 1 |
| chitin degradation II (Vibrio) | 6 | 3 | 2 |
| reactive oxygen species degradation | 4 | 3 | 1 |
| ethene biosynthesis III (microbes) | 7 | 5 | 1 |
| chitin degradation III (Serratia) | 7 | 3 | 1 |
| peptidoglycan recycling II | 10 | 2 | 1 |
| peptidoglycan recycling I | 14 | 6 | 1 |