Experiment set2H29 for Shewanella amazonensis SB2B
Minimal media with L-Glutamine as carbon source
Group: carbon sourceMedia: ShewMM_noCarbon + L-Glutamine (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 E1,E2
Specific Phenotypes
For 10 genes in this experiment
For carbon source L-Glutamine in Shewanella amazonensis SB2B
For carbon source L-Glutamine across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Glutamate metabolism
- Lysine degradation
- Arginine and proline metabolism
- Taurine and hypotaurine metabolism
- Selenoamino acid metabolism
- Cyanoamino acid metabolism
- D-Glutamine and D-glutamate metabolism
- Glutathione metabolism
- Peptidoglycan biosynthesis
- Arachidonic acid metabolism
- Biotin metabolism
- Nitrogen metabolism
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
Pathway | #Steps | #Present | #Specific |
---|---|---|---|
L-glutamine degradation I | 1 | 1 | 1 |
glutathione degradation (DUG pathway) | 2 | 2 | 1 |
L-glutamate biosynthesis I | 2 | 2 | 1 |
ammonia assimilation cycle III | 3 | 3 | 1 |
glutaminyl-tRNAgln biosynthesis via transamidation | 4 | 1 | 1 |
L-asparagine biosynthesis III (tRNA-dependent) | 4 | 1 | 1 |
peptido-conjugates in tissue regeneration biosynthesis | 17 | 6 | 3 |
γ-glutamyl cycle | 6 | 5 | 1 |
leukotriene biosynthesis | 6 | 2 | 1 |
L-glutamate and L-glutamine biosynthesis | 7 | 6 | 1 |
L-citrulline biosynthesis | 8 | 7 | 1 |
superpathway of L-citrulline metabolism | 12 | 9 | 1 |
hypoglycin biosynthesis | 14 | 4 | 1 |