Experiment set2H23 for Shewanella amazonensis SB2B
Minimal media with Sodium pyruvate as carbon source
Group: carbon sourceMedia: ShewMM_noCarbon + Sodium pyruvate (20 mM), pH=7
Culturing: SB2B_ML5, 48 well microplate; Tecan Infinite F200, Aerobic, at 37 (C), shaken=orbital
By: Jake on 4/15/2013
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, 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)
Growth plate: 505 C1,C2
Specific Phenotypes
For 2 genes in this experiment
For carbon source Sodium pyruvate in Shewanella amazonensis SB2B
For carbon source Sodium pyruvate across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Glycerol and Glycerol-3-phosphate Uptake and Utilization | 1 |
| Isobutyryl-CoA to Propionyl-CoA Module | 1 |
| Isoleucine degradation | 1 |
| Valine degradation | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Fatty acid elongation in mitochondria
- Fatty acid metabolism
- Valine, leucine and isoleucine degradation
- Geraniol degradation
- Lysine degradation
- Tryptophan metabolism
- beta-Alanine metabolism
- alpha-Linolenic acid metabolism
- Benzoate degradation via CoA ligation
- Propanoate metabolism
- Butanoate metabolism
- Limonene and pinene degradation
- Caprolactam degradation
- Biosynthesis of unsaturated fatty acids
- Biosynthesis of plant hormones
MetaCyc Pathways
Pathways that contain genes with specific phenotypes: