Experiment set1IT034 for Rhizobium sp. OAE497
Sodium pyruvate carbon source
Group: carbon sourceMedia: RCH2_defined_noCarbon + Sodium pyruvate (20 mM)
Culturing: Rhizobium_OAE497_ML5, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=700 rpm
By: Dennis/Robin on 4/4/22
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 7 genes in this experiment
For carbon source Sodium pyruvate in Rhizobium sp. OAE497
For carbon source Sodium pyruvate across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| HMG CoA Synthesis | 4 |
| Leucine Degradation and HMG-CoA Metabolism | 4 |
| Serine-glyoxylate cycle | 2 |
| Aromatic amino acid interconversions with aryl acids | 1 |
| Polyhydroxybutyrate metabolism | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Valine, leucine and isoleucine degradation
- Butanoate metabolism
- Synthesis and degradation of ketone bodies
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-leucine degradation I | 6 | 5 | 3 |
| mevalonate degradation | 2 | 1 | 1 |
| ketogenesis | 5 | 3 | 1 |
| 2-deoxy-D-ribose degradation II | 8 | 3 | 1 |
| cis-geranyl-CoA degradation | 9 | 2 | 1 |