Experiment set6IT041 for Klebsiella michiganensis M5al
L-Lysine nitrogen source
Group: nitrogen sourceMedia: RCH2_defined_Glucose_noNitrogen + L-Lysine (20 mM), pH=7
Culturing: Koxy_ML2, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Adam on 27-Apr-17
Media components: 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM D-Glucose, 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: 1809 A3
Specific Phenotypes
For 12 genes in this experiment
For nitrogen source L-Lysine in Klebsiella michiganensis M5al
For nitrogen source L-Lysine across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Arginine and Ornithine Degradation | 6 |
| Arginine Biosynthesis extended | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Arginine and proline metabolism
- Urea cycle and metabolism of amino groups
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-arginine degradation II (AST pathway) | 5 | 5 | 2 |
| L-ornithine biosynthesis I | 5 | 5 | 2 |
| molybdenum cofactor biosynthesis | 3 | 3 | 1 |
| bis(tungstenpterin) cofactor biosynthesis | 4 | 1 | 1 |
| L-arginine biosynthesis I (via L-ornithine) | 9 | 9 | 2 |
| L-arginine biosynthesis III (via N-acetyl-L-citrulline) | 9 | 8 | 2 |
| superpathway of arginine and polyamine biosynthesis | 17 | 16 | 2 |
| L-arginine biosynthesis II (acetyl cycle) | 10 | 9 | 1 |