Experiment set7IT058 for Phaeobacter inhibens DSM 17395
L-Glutamine carbon source
Group: carbon sourceMedia: DinoMM_noCarbon_HighNutrient + L-Glutamine (20 mM), pH=7
Culturing: Phaeo_ML1, tube, Aerobic, at 25 (C), shaken=200 rpm
Growth: about 4.8 generations
By: Adam on marchapr14
Media components: 20 g/L Sea salts, 0.3 g/L Ammonium Sulfate, 0.1 g/L Potassium phosphate monobasic, 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 19 genes in this experiment
For carbon source L-Glutamine in Phaeobacter inhibens DSM 17395
For carbon source L-Glutamine across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis | 3 |
| Ammonia assimilation | 2 |
| Flagellum | 2 |
| Pyruvate metabolism I: anaplerotic reactions, PEP | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Glutamate metabolism
- Nitrogen metabolism
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
- Arginine and proline metabolism
- D-Glutamine and D-glutamate metabolism
- Pyruvate metabolism
- Carbon fixation in photosynthetic organisms
- Biosynthesis of terpenoids and steroids
- Biosynthesis of alkaloids derived from shikimate pathway
- Biosynthesis of alkaloids derived from histidine and purine
- Biosynthesis of alkaloids derived from terpenoid and polyketide
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-glutamate biosynthesis I | 2 | 2 | 2 |
| L-glutamine degradation II | 1 | 1 | 1 |
| L-glutamine degradation I | 1 | 1 | 1 |
| ammonia assimilation cycle III | 3 | 3 | 2 |
| L-glutamate and L-glutamine biosynthesis | 7 | 7 | 2 |
| C4 photosynthetic carbon assimilation cycle, NADP-ME type | 7 | 4 | 2 |
| glutaminyl-tRNAgln biosynthesis via transamidation | 4 | 4 | 1 |
| L-asparagine biosynthesis III (tRNA-dependent) | 4 | 4 | 1 |
| methylgallate degradation | 6 | 2 | 1 |
| C4 photosynthetic carbon assimilation cycle, PEPCK type | 14 | 7 | 2 |
| L-citrulline biosynthesis | 8 | 8 | 1 |
| protocatechuate degradation I (meta-cleavage pathway) | 8 | 3 | 1 |
| superpathway of vanillin and vanillate degradation | 10 | 3 | 1 |
| superpathway of L-citrulline metabolism | 12 | 10 | 1 |
| syringate degradation | 12 | 3 | 1 |
| gluconeogenesis I | 13 | 12 | 1 |