Experiment set1IT033 for Pseudomonas segetis P6
D-Glucose
Group: carbon sourceMedia: RCH2_defined_noCarbon + D-Glucose (20 mM)
Culturing: Pseudo_segetis_P6_ML4, tube, Aerobic, at 30 (C), shaken=200 rpm
By: Marta Torres on 4-Apr-22
Media components: 0.25 g/L Ammonium chloride, 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 6 genes in this experiment
For carbon source D-Glucose in Pseudomonas segetis P6
For carbon source D-Glucose across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Nudix proteins (nucleoside triphosphate hydrolases) | 1 |
| Polyamine Metabolism | 1 |
| Serine-glyoxylate cycle | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Fructose and mannose metabolism
- Ascorbate and aldarate metabolism
- Urea cycle and metabolism of amino groups
- Methionine metabolism
- Arginine and proline metabolism
- Taurine and hypotaurine metabolism
- Aminosugars metabolism
- Lipopolysaccharide biosynthesis
- Ether lipid metabolism
- Sphingolipid metabolism
- Glyoxylate and dicarboxylate metabolism
- Thiamine metabolism
- Riboflavin metabolism
- Nicotinate and nicotinamide metabolism
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| spermidine biosynthesis I | 2 | 2 | 1 |
| sulfoacetaldehyde degradation I | 2 | 2 | 1 |
| spermine biosynthesis | 2 | 1 | 1 |
| aminopropylcadaverine biosynthesis | 3 | 3 | 1 |
| spermidine biosynthesis III | 4 | 2 | 1 |
| sulfolactate degradation II | 4 | 2 | 1 |
| glyoxylate cycle | 6 | 5 | 1 |
| superpathway of taurine degradation | 6 | 4 | 1 |
| superpathway of sulfolactate degradation | 6 | 3 | 1 |
| superpathway of polyamine biosynthesis I | 8 | 7 | 1 |
| superpathway of polyamine biosynthesis II | 8 | 6 | 1 |
| L-methionine salvage cycle III | 11 | 10 | 1 |
| superpathway of glyoxylate bypass and TCA | 12 | 10 | 1 |
| L-methionine salvage cycle I (bacteria and plants) | 12 | 9 | 1 |
| superpathway of glyoxylate cycle and fatty acid degradation | 14 | 11 | 1 |
| superpathway of arginine and polyamine biosynthesis | 17 | 16 | 1 |
| superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass | 26 | 21 | 1 |