Experiment setAH13 for Shewanella oneidensis MR-1
Minimal 10C
Group: temperatureMedia: ShewMM, pH=7
Culturing: MR1_ML3, tube, Aerobic, at 10 (C), shaken=200 rpm
Growth: about 3.0 generations
By: Adam on 8/28/2013
Media components: 1.5 g/L Ammonium chloride, 1.75 g/L Sodium Chloride, 0.61 g/L Magnesium chloride hexahydrate, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM Sodium D,L-Lactate, 30 mM PIPES sesquisodium salt, Wolfe's mineral mix (0.03 g/L Magnesium Sulfate Heptahydrate, 0.015 g/L Nitrilotriacetic acid, 0.01 g/L Sodium Chloride, 0.005 g/L Manganese (II) sulfate monohydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc sulfate heptahydrate, 0.001 g/L Calcium chloride dihydrate, 0.001 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.0002 g/L Aluminum potassium sulfate dodecahydrate, 0.0001 g/L Copper (II) sulfate pentahydrate, 0.0001 g/L Boric Acid, 0.0001 g/L Sodium Molybdate Dihydrate, 0.003 mg/L Sodium selenite pentahydrate), Wolfe's vitamin mix (0.1 mg/L Pyridoxine HCl, 0.05 mg/L 4-Aminobenzoic acid, 0.05 mg/L Lipoic acid, 0.05 mg/L Nicotinic Acid, 0.05 mg/L Riboflavin, 0.05 mg/L Thiamine HCl, 0.05 mg/L calcium pantothenate, 0.02 mg/L biotin, 0.02 mg/L Folic Acid, 0.001 mg/L Cyanocobalamin)
Specific Phenotypes
For 11 genes in this experiment
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Bacterial Cell Division | 1 |
| Glycine Biosynthesis | 1 |
| Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate | 1 |
| Threonine degradation | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-threonine degradation III (to methylglyoxal) | 3 | 2 | 2 |
| L-threonine degradation II | 2 | 2 | 1 |
| aminopropanol phosphate biosynthesis II | 4 | 2 | 2 |
| methylglyoxal degradation I | 3 | 2 | 1 |
| methylglyoxal degradation VIII | 3 | 2 | 1 |
| superpathway of methylglyoxal degradation | 8 | 4 | 1 |
| superpathway of L-threonine metabolism | 18 | 15 | 2 |