Experiment set12IT031 for Bacteroides thetaiotaomicron VPI-5482
Varel_Bryant_medium_Glucose with Chenodeoxycholic acid 0.25 mg/ml
Group: stressMedia: Varel_Bryant_medium_Glucose + Chenodeoxycholic acid (0.25 mg/ml) + Ethanol (1.25 vol%)
Culturing: Btheta_ML6a, 24-well transparent microplate, Anaerobic, at 37 (C), shaken=0 rpm
By: Adam on 6/29/18
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, 20 mM D-Glucose, 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)
Growth plate: 2050 C3
Specific Phenotypes
For 2 genes in this experiment
For stress Chenodeoxycholic acid in Bacteroides thetaiotaomicron VPI-5482
For stress Chenodeoxycholic acid across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| TCA Cycle | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Citrate cycle (TCA cycle)
- Glutathione metabolism
- Reductive carboxylate cycle (CO2 fixation)
- Biosynthesis of phenylpropanoids
- Biosynthesis of terpenoids and steroids
- Biosynthesis of alkaloids derived from shikimate pathway
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
- Biosynthesis of alkaloids derived from histidine and purine
- Biosynthesis of alkaloids derived from terpenoid and polyketide
- Biosynthesis of plant hormones
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| cytosolic NADPH production (yeast) | 5 | 3 | 1 |
| partial TCA cycle (obligate autotrophs) | 8 | 5 | 1 |
| nitrogen remobilization from senescing leaves | 8 | 5 | 1 |
| superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) | 8 | 3 | 1 |
| TCA cycle V (2-oxoglutarate synthase) | 9 | 8 | 1 |
| TCA cycle VII (acetate-producers) | 9 | 6 | 1 |
| TCA cycle VI (Helicobacter) | 9 | 6 | 1 |
| TCA cycle IV (2-oxoglutarate decarboxylase) | 9 | 6 | 1 |
| TCA cycle I (prokaryotic) | 10 | 7 | 1 |
| reductive TCA cycle I | 11 | 9 | 1 |
| reductive TCA cycle II | 12 | 8 | 1 |
| superpathway of glyoxylate bypass and TCA | 12 | 7 | 1 |
| mixed acid fermentation | 16 | 12 | 1 |
| methylaspartate cycle | 19 | 11 | 1 |
| ethene biosynthesis V (engineered) | 25 | 15 | 1 |
| superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass | 26 | 18 | 1 |