Experiment set2S499 for Bacteroides stercoris CC31F
D-Galacturonic Acid monohydrate 10 mM carbon source
Group: carbon sourceMedia: Varel_Bryant_medium + D-Galacturonic Acid monohydrate (10 mM)
Culturing: Bstercoris_CC31F_ML5, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 37 (C), shaken=0 rpm
By: Surya on 10/31/24
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 3 genes in this experiment
For carbon source D-Galacturonic Acid monohydrate in Bacteroides stercoris CC31F
For carbon source D-Galacturonic Acid monohydrate across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Phosphate metabolism | 1 |
| Propionate-CoA to Succinate Module | 1 |
| 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)
- Oxidative phosphorylation
- Glyoxylate and dicarboxylate 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 |
|---|---|---|---|
| glyoxylate cycle | 6 | 4 | 2 |
| partial TCA cycle (obligate autotrophs) | 8 | 5 | 2 |
| nitrogen remobilization from senescing leaves | 8 | 5 | 2 |
| TCA cycle V (2-oxoglutarate synthase) | 9 | 7 | 2 |
| TCA cycle II (plants and fungi) | 9 | 6 | 2 |
| TCA cycle VI (Helicobacter) | 9 | 6 | 2 |
| TCA cycle IV (2-oxoglutarate decarboxylase) | 9 | 6 | 2 |
| TCA cycle VII (acetate-producers) | 9 | 6 | 2 |
| TCA cycle III (animals) | 10 | 7 | 2 |
| TCA cycle I (prokaryotic) | 10 | 7 | 2 |
| reductive TCA cycle I | 11 | 8 | 2 |
| superpathway of glyoxylate bypass and TCA | 12 | 7 | 2 |
| reductive TCA cycle II | 12 | 7 | 2 |
| superpathway of glyoxylate cycle and fatty acid degradation | 14 | 6 | 2 |
| glyphosate degradation III | 7 | 2 | 1 |
| mixed acid fermentation | 16 | 11 | 2 |
| (aminomethyl)phosphonate degradation | 8 | 2 | 1 |
| methylaspartate cycle | 19 | 10 | 2 |
| superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle | 22 | 16 | 2 |
| ethene biosynthesis V (engineered) | 25 | 15 | 2 |
| superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass | 26 | 19 | 2 |