Experiment set2IT017 for Acidovorax sp. GW101-3H11
L-Glutamine carbon source
Group: carbon sourceMedia: RCH2_defined_noCarbon + L-Glutamine (20 mM), pH=7
Culturing: acidovorax_3H11_ML3a, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
By: Mark on 5/11/2015
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 L-Glutamine in Acidovorax sp. GW101-3H11
For carbon source L-Glutamine across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis | 1 |
| Glutathione: Biosynthesis and gamma-glutamyl cycle | 1 |
| 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:
- Alanine and aspartate metabolism
- Arginine and proline metabolism
- Cyanoamino acid metabolism
- Glutathione metabolism
- Pyruvate metabolism
- Carbon fixation in photosynthetic organisms
- Nitrogen metabolism
- Biosynthesis of terpenoids and steroids
- Biosynthesis of alkaloids derived from shikimate pathway
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
- 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-malate degradation I | 1 | 1 | 1 |
| L-asparagine degradation I | 1 | 1 | 1 |
| L-asparagine degradation III (mammalian) | 3 | 2 | 1 |
| C4 photosynthetic carbon assimilation cycle, NADP-ME type | 7 | 4 | 2 |
| superpathway of L-aspartate and L-asparagine biosynthesis | 4 | 3 | 1 |
| creatinine degradation II | 5 | 2 | 1 |
| N-(1-deoxy-D-fructos-1-yl)-L-asparagine degradation | 5 | 2 | 1 |
| methylgallate degradation | 6 | 6 | 1 |
| 5-oxo-L-proline metabolism | 6 | 5 | 1 |
| γ-glutamyl cycle | 6 | 4 | 1 |
| C4 photosynthetic carbon assimilation cycle, PEPCK type | 14 | 8 | 2 |
| protocatechuate degradation I (meta-cleavage pathway) | 8 | 8 | 1 |
| superpathway of vanillin and vanillate degradation | 10 | 9 | 1 |
| syringate degradation | 12 | 8 | 1 |
| gluconeogenesis I | 13 | 11 | 1 |