Experiment set11IT087 for Bacteroides thetaiotaomicron VPI-5482
Varel_Bryant_medium_Glucose with Indolicidin 0.002 mg/ml
Group: stressMedia: Varel_Bryant_medium_Glucose + Indolicidin (0.002 mg/ml)
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: 2048 B2
Specific Phenotypes
For 2 genes in this experiment
For stress Indolicidin in Bacteroides thetaiotaomicron VPI-5482
For stress Indolicidin across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Serine-glyoxylate cycle | 1 |
| 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)
- Glyoxylate and dicarboxylate metabolism
- 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 |
|---|---|---|---|
| glyoxylate cycle | 6 | 4 | 1 |
| partial TCA cycle (obligate autotrophs) | 8 | 5 | 1 |
| nitrogen remobilization from senescing leaves | 8 | 5 | 1 |
| TCA cycle V (2-oxoglutarate synthase) | 9 | 8 | 1 |
| TCA cycle II (plants and fungi) | 9 | 6 | 1 |
| TCA cycle VI (Helicobacter) | 9 | 6 | 1 |
| TCA cycle VII (acetate-producers) | 9 | 6 | 1 |
| TCA cycle IV (2-oxoglutarate decarboxylase) | 9 | 6 | 1 |
| TCA cycle III (animals) | 10 | 7 | 1 |
| TCA cycle I (prokaryotic) | 10 | 7 | 1 |
| superpathway of glyoxylate bypass and TCA | 12 | 7 | 1 |
| superpathway of glyoxylate cycle and fatty acid degradation | 14 | 6 | 1 |
| mixed acid fermentation | 16 | 12 | 1 |
| methylaspartate cycle | 19 | 11 | 1 |
| superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle | 22 | 17 | 1 |
| ethene biosynthesis V (engineered) | 25 | 15 | 1 |
| superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass | 26 | 18 | 1 |