Experiment set11IT022 for Pseudomonas fluorescens FW300-N2E2
RCH2 defined with copper (II) chloride dihydrate 0.03 mM
Group: stressMedia: RCH2_defined + copper (II) chloride dihydrate (0.03 mM)
Culturing: pseudo6_N2E2_ML5b, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Adam on 21-Jun-16
Media components: 0.25 g/L Ammonium chloride, 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: plate4 B3
Specific Phenotypes
For 5 genes in this experiment
For stress copper (II) chloride dihydrate in Pseudomonas fluorescens FW300-N2E2
For stress copper (II) chloride dihydrate across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Lysine degradation | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Glutamate metabolism
- Alanine and aspartate metabolism
- Cysteine metabolism
- Lysine degradation
- beta-Alanine metabolism
- Propanoate metabolism
- Butanoate metabolism
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| thiosulfate disproportionation IV (rhodanese) | 1 | 1 | 1 |
| 4-aminobutanoate degradation II | 2 | 2 | 1 |
| 4-aminobutanoate degradation III | 2 | 2 | 1 |
| L-cysteine degradation III | 2 | 1 | 1 |
| 4-aminobutanoate degradation I | 2 | 1 | 1 |
| superpathway of 4-aminobutanoate degradation | 3 | 2 | 1 |
| GABA shunt II | 4 | 2 | 1 |
| GABA shunt I | 4 | 1 | 1 |
| L-lysine degradation IV | 5 | 5 | 1 |
| sulfide oxidation IV (mitochondria) | 5 | 2 | 1 |
| L-lysine degradation X | 6 | 5 | 1 |
| L-lysine degradation III | 6 | 2 | 1 |
| L-lysine degradation I | 7 | 4 | 1 |
| 4-aminobutanoate degradation V | 7 | 2 | 1 |
| superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation | 11 | 9 | 1 |
| superpathway of L-arginine and L-ornithine degradation | 13 | 11 | 1 |
| nicotine degradation I (pyridine pathway) | 17 | 5 | 1 |
| superpathway of L-lysine degradation | 43 | 19 | 1 |