Experiment set10IT094 for Shewanella oneidensis MR-1
LB lactate, anaerobic, 1G configuration
Group: harvMedia: LB + Sodium D,L-Lactate (20 mM)
Culturing: MR1_ML3b, HARV, Anaerobic, at 30 (C), shaken=30 rpm
By: Michael Dougherty on 26-Jul-17
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Specific Phenotypes
For 11 genes in this experiment
For harv Sodium D,L-Lactate in Shewanella oneidensis MR-1
For harv Sodium D,L-Lactate across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Bacterial hemoglobins | 2 |
| Bacterial Chemotaxis | 1 |
| Glutathione-dependent pathway of formaldehyde detoxification | 1 |
| Oxidative stress | 1 |
| Photorespiration (oxidative C2 cycle) | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Methane metabolism
- Fructose and mannose metabolism
- Tryptophan metabolism
- N-Glycan biosynthesis
- O-Glycan biosynthesis
- High-mannose type N-glycan biosynthesis
- O-Mannosyl glycan biosynthesis
- Keratan sulfate biosynthesis
- Lipopolysaccharide biosynthesis
- Peptidoglycan biosynthesis
- Glycerolipid metabolism
- Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
- Sphingolipid metabolism
- Glycosphingolipid biosynthesis - lacto and neolacto series
- Glycosphingolipid biosynthesis - globo series
- Glycosphingolipid biosynthesis - ganglio series
- Carotenoid biosynthesis - General
- Zeatin biosynthesis
- Flavonoid biosynthesis
- Anthocyanin biosynthesis
- Flavone and flavonol biosynthesis
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| superoxide radicals degradation | 2 | 2 | 1 |
| methanol oxidation to formaldehyde IV | 2 | 1 | 1 |
| formaldehyde oxidation II (glutathione-dependent) | 3 | 3 | 1 |
| ethanol degradation IV | 3 | 3 | 1 |
| methylglyoxal degradation VIII | 3 | 2 | 1 |
| methylglyoxal degradation I | 3 | 2 | 1 |
| reactive oxygen species degradation | 4 | 4 | 1 |
| superpathway of methylglyoxal degradation | 8 | 4 | 1 |
| superpathway of C1 compounds oxidation to CO2 | 12 | 4 | 1 |