Experiment set2IT003 for Shewanella sp. ANA-3
L-Isoleucine carbon source
Group: carbon sourceMedia: ShewMM_noCarbon + L-Isoleucine (20 mM), pH=7
Culturing: ANA3_ML1, tube, Aerobic, at 30 (C), shaken=200 rpm
By: Jake on 2/12/2014
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)
Specific Phenotypes
For 3 genes in this experiment
For carbon source L-Isoleucine in Shewanella sp. ANA-3
For carbon source L-Isoleucine across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Isobutyryl-CoA to Propionyl-CoA Module | 2 |
| Valine degradation | 2 |
| Isoleucine degradation | 1 |
| Leucine Degradation and HMG-CoA Metabolism | 1 |
| Restriction-Modification System | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Valine, leucine and isoleucine degradation
- Fatty acid metabolism
- Geraniol degradation
- Inositol phosphate metabolism
- 1- and 2-Methylnaphthalene degradation
- Benzoate degradation via CoA ligation
- Propanoate metabolism
- Brassinosteroid biosynthesis
- Caprolactam degradation
- Biosynthesis of terpenoids and steroids
- Biosynthesis of plant hormones
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| β-alanine degradation II | 2 | 2 | 1 |
| β-alanine degradation I | 2 | 1 | 1 |
| propanoyl-CoA degradation II | 5 | 3 | 1 |
| myo-inositol degradation I | 7 | 1 | 1 |
| 2,4-dinitrotoluene degradation | 7 | 1 | 1 |
| L-valine degradation I | 8 | 6 | 1 |
| myo-, chiro- and scyllo-inositol degradation | 10 | 1 | 1 |