Experiment set2H30 for Pseudomonas stutzeri RCH2
Putrescine Dihydrochloride nitrogen source
Group: nitrogen sourceMedia: RCH2_defined_noNitrogen + Putrescine Dihydrochloride (5 mM), pH=7.2
Culturing: psRCH2_ML7, 48 well microplate; Tecan Infinite F200, Aerobic, at 30 (C), shaken=orbital
By: Kelly on 6/20/2013
Media components: 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM Sodium D,L-Lactate, 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: 552 D3,D4
Specific Phenotypes
For 6 genes in this experiment
For nitrogen source Putrescine Dihydrochloride in Pseudomonas stutzeri RCH2
For nitrogen source Putrescine Dihydrochloride across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Polyamine Metabolism | 3 |
| Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis | 2 |
| Pyruvate Alanine Serine Interconversions | 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
- Glutamate metabolism
- Alanine and aspartate metabolism
- Methionine metabolism
- Valine, leucine and isoleucine degradation
- Lysine biosynthesis
- Lysine degradation
- beta-Alanine metabolism
- Aminophosphonate metabolism
- Nucleotide sugars metabolism
- Propanoate metabolism
- Nitrogen metabolism
- Caprolactam degradation
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-glutamine biosynthesis I | 1 | 1 | 1 |
| ammonia assimilation cycle I | 2 | 2 | 1 |
| putrescine degradation V | 2 | 2 | 1 |
| β-alanine degradation II | 2 | 2 | 1 |
| ammonia assimilation cycle II | 2 | 1 | 1 |
| ammonia assimilation cycle III | 3 | 3 | 1 |
| superpathway of ammonia assimilation (plants) | 3 | 2 | 1 |
| L-aspartate degradation III (anaerobic) | 3 | 2 | 1 |
| L-aspartate degradation II (aerobic) | 3 | 2 | 1 |
| putrescine degradation II | 4 | 3 | 1 |
| β-alanine biosynthesis II | 6 | 5 | 1 |
| L-glutamate and L-glutamine biosynthesis | 7 | 5 | 1 |
| superpathway of ornithine degradation | 8 | 6 | 1 |
| L-arginine biosynthesis II (acetyl cycle) | 10 | 10 | 1 |
| superpathway of coenzyme A biosynthesis II (plants) | 10 | 9 | 1 |
| superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation | 11 | 6 | 1 |
| superpathway of L-arginine and L-ornithine degradation | 13 | 8 | 1 |