Experiment set1S392 for Phocaeicola dorei CL03T12C01
b-Glucan from Beet (1,2-b-Glucan) carbon source
Group: carbon sourceMedia: Varel_Bryant_medium + b-Glucan from Beet (1,2-b-Glucan) (5 mg/mL)
Culturing: Bdorei_CL03T12C01_ML9, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 34 (C), shaken=0 rpm
By: Surya on 10/1/23
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 8 genes in this experiment
For carbon source b-Glucan from Beet (1,2-b-Glucan) in Phocaeicola dorei CL03T12C01
For carbon source b-Glucan from Beet (1,2-b-Glucan) across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Pyrimidine metabolism
- Cyanoamino acid metabolism
- Starch and sucrose metabolism
- Nitrogen metabolism
- Phenylpropanoid biosynthesis
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| neolinustatin bioactivation | 3 | 2 | 2 |
| linustatin bioactivation | 4 | 2 | 2 |
| lotaustralin degradation | 2 | 1 | 1 |
| CO2 fixation into oxaloacetate (anaplerotic) | 2 | 1 | 1 |
| pseudouridine degradation | 2 | 1 | 1 |
| linamarin degradation | 2 | 1 | 1 |
| cyanate degradation | 3 | 2 | 1 |
| cellulose degradation II (fungi) | 3 | 1 | 1 |
| coumarin biosynthesis (via 2-coumarate) | 5 | 2 | 1 |
| α-tomatine degradation | 6 | 1 | 1 |
| C4 photosynthetic carbon assimilation cycle, NADP-ME type | 7 | 4 | 1 |
| C4 photosynthetic carbon assimilation cycle, NAD-ME type | 11 | 5 | 1 |
| 3-hydroxypropanoate cycle | 13 | 6 | 1 |
| glyoxylate assimilation | 13 | 3 | 1 |
| C4 photosynthetic carbon assimilation cycle, PEPCK type | 14 | 7 | 1 |
| firefly bioluminescence | 14 | 2 | 1 |
| gluconeogenesis II (Methanobacterium thermoautotrophicum) | 18 | 7 | 1 |
| superpathway of the 3-hydroxypropanoate cycle | 18 | 6 | 1 |
| 3-hydroxypropanoate/4-hydroxybutanate cycle | 18 | 6 | 1 |
| Methanobacterium thermoautotrophicum biosynthetic metabolism | 56 | 16 | 1 |