Experiment set3IT082 for Dyella japonica UNC79MFTsu3.2
L-Arginine nitrogen source
Group: nitrogen sourceMedia: RCH2_defined_Glucose_noNitrogen + L-Arginine (10 mM), pH=7
Culturing: Dyella79_ML3, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
Growth: about 3.4 generations
By: Adam on 17-May-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: 1767 A1
Specific Phenotypes
For 1 genes in this experiment
For nitrogen source L-Arginine in Dyella japonica UNC79MFTsu3.2
For nitrogen source L-Arginine across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Arginine and Ornithine Degradation | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Urea cycle and metabolism of amino groups
- Arginine and proline metabolism
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-canavanine degradation I | 2 | 1 | 1 |
| putrescine biosynthesis III | 2 | 1 | 1 |
| L-arginine degradation VII (arginase 3 pathway) | 2 | 1 | 1 |
| L-arginine degradation I (arginase pathway) | 3 | 2 | 1 |
| L-arginine degradation VI (arginase 2 pathway) | 4 | 3 | 1 |
| superpathway of putrescine biosynthesis | 4 | 2 | 1 |
| urea cycle | 5 | 3 | 1 |
| L-Nδ-acetylornithine biosynthesis | 7 | 4 | 1 |
| superpathway of polyamine biosynthesis II | 8 | 6 | 1 |
| L-citrulline biosynthesis | 8 | 5 | 1 |
| superpathway of polyamine biosynthesis I | 8 | 4 | 1 |
| superpathway of L-citrulline metabolism | 12 | 7 | 1 |
| superpathway of hyoscyamine (atropine) and scopolamine biosynthesis | 16 | 4 | 1 |
| superpathway of arginine and polyamine biosynthesis | 17 | 12 | 1 |