Experiment set34S63 for Bacteroides thetaiotaomicron VPI-5482
cage1; mouse3; day3; diet=StandardDiet; sample=FecalPellet; coculture=Bbreve_UCC2003
Group: mouse_cocultureMedia: + diet=StandardDiet; sample=FecalPellet; coculture=Bbreve_UCC2003
Culturing: Btheta_ML6b
By: Anthony Shiver on 4/2/24
Specific Phenotypes
For 2 genes in this experiment
For mouse_coculture diet=StandardDiet; sample=FecalPellet; coculture=Bbreve_UCC2003 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 |
| nitrogen remobilization from senescing leaves | 8 | 5 | 1 |
| partial TCA cycle (obligate autotrophs) | 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 VI (Helicobacter) | 9 | 6 | 1 |
| TCA cycle IV (2-oxoglutarate decarboxylase) | 9 | 6 | 1 |
| TCA cycle VII (acetate-producers) | 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 |