Experiment set9IT085 for Ralstonia sp. UNC404CL21Col
Sodium butyrate carbon source
Group: carbon sourceMedia: MOPS minimal media_noCarbon + Sodium butyrate (10 mM)
Culturing: CL21_ML4_JBEI, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 2.4 generations
By: Allie Pearson on 8/26/19
Media components: 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 1.32 mM Potassium phosphate dibasic, 0.01 mM Iron (II) sulfate heptahydrate, 9.5 mM Ammonium chloride, 0.276 mM Aluminum potassium sulfate dodecahydrate, 0.0005 mM Calcium chloride, 0.525 mM Magnesium chloride hexahydrate, 50 mM Sodium Chloride, 3e-09 M Ammonium heptamolybdate tetrahydrate, 4e-07 M Boric Acid, 3e-08 M Cobalt chloride hexahydrate, 1e-08 M Copper (II) sulfate pentahydrate, 8e-08 M Manganese (II) chloride tetrahydrate, 1e-08 M Zinc sulfate heptahydrate
Specific Phenotypes
For 4 genes in this experiment
For carbon source Sodium butyrate in Ralstonia sp. UNC404CL21Col
For carbon source Sodium butyrate across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Isobutyryl-CoA to Propionyl-CoA Module | 2 |
| Valine degradation | 2 |
| Ketoisovalerate oxidoreductase | 1 |
| Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate | 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
- Propanoate metabolism
- Glycolysis / Gluconeogenesis
- Inositol phosphate metabolism
- Pyruvate metabolism
- Reductive carboxylate cycle (CO2 fixation)
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| acetate conversion to acetyl-CoA | 1 | 1 | 1 |
| acetate and ATP formation from acetyl-CoA III | 1 | 1 | 1 |
| β-alanine degradation II | 2 | 2 | 1 |
| β-alanine degradation I | 2 | 1 | 1 |
| ethanol degradation IV | 3 | 3 | 1 |
| superpathway of acetate utilization and formation | 3 | 3 | 1 |
| ethanol degradation II | 3 | 3 | 1 |
| L-isoleucine biosynthesis V | 3 | 2 | 1 |
| ethanol degradation III | 3 | 2 | 1 |
| L-valine degradation I | 8 | 5 | 2 |
| chitin deacetylation | 4 | 2 | 1 |
| propanoyl-CoA degradation II | 5 | 3 | 1 |
| superpathway of bitter acids biosynthesis | 18 | 3 | 3 |
| colupulone and cohumulone biosynthesis | 6 | 1 | 1 |
| lupulone and humulone biosynthesis | 6 | 1 | 1 |
| adlupulone and adhumulone biosynthesis | 6 | 1 | 1 |
| myo-inositol degradation I | 7 | 1 | 1 |
| 2,4-dinitrotoluene degradation | 7 | 1 | 1 |
| reductive glycine pathway of autotrophic CO2 fixation | 9 | 5 | 1 |
| cis-geranyl-CoA degradation | 9 | 3 | 1 |
| myo-, chiro- and scyllo-inositol degradation | 10 | 1 | 1 |