Experiment set1S349 for Escherichia fergusonii Becca
BHIS no phage control with stool-derived community from humanized mice (condition: pre-antibiotic, MAC-deficient diet, mouse 1)
Group: mixed community no phage controlMedia: BHIS + stool-derived community from humanized mice (condition: pre-antibiotic, MAC-deficient diet, mouse 1)
Culturing: E_fergusonii_Becca_ML3
By: Taylor on 1/3/24
Media components: 7.7 g/L Calf brains, 9.8 g/L Beef heart, 10 g/L Proteose Peptone, 5 g/L Sodium Chloride, 2.5 g/L Disodium phosphate, 1 g/L L-Cysteine, 2 g/L Sodium bicarbonate, 0.005 g/L Hemin
Specific Phenotypes
For 1 genes in this experiment
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Entner-Doudoroff Pathway | 1 |
| Pentose phosphate pathway | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Pentose phosphate pathway
- Glutathione metabolism
- Biosynthesis of alkaloids derived from histidine and purine
- Biosynthesis of plant hormones
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| pentose phosphate pathway (oxidative branch) I | 3 | 3 | 1 |
| cytosolic NADPH production (yeast) | 5 | 4 | 1 |
| formaldehyde oxidation I | 6 | 4 | 1 |
| L-lysine biosynthesis VI | 7 | 6 | 1 |
| pentose phosphate pathway | 8 | 8 | 1 |
| superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) | 8 | 5 | 1 |
| L-lysine biosynthesis I | 9 | 9 | 1 |
| Entner-Doudoroff pathway I | 9 | 9 | 1 |
| L-lysine biosynthesis II | 9 | 6 | 1 |
| superpathway of L-lysine, L-threonine and L-methionine biosynthesis II | 15 | 13 | 1 |
| superpathway of glucose and xylose degradation | 17 | 17 | 1 |
| superpathway of glycolysis and the Entner-Doudoroff pathway | 17 | 17 | 1 |
| superpathway of L-lysine, L-threonine and L-methionine biosynthesis I | 18 | 18 | 1 |
| heterolactic fermentation | 18 | 16 | 1 |
| aspartate superpathway | 25 | 24 | 1 |