Experiment set2IT007 for Pseudomonas sp. RS175
trans-aconitic acid carbon source 5 mM
Group: carbon sourceMedia: MME_noCarbon + trans-aconitic acid (5 mM), pH=7
Culturing: Pseudomonas_RS175_ML2, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=1200 rpm
By: Joshua Elmore on 1-Jul-22
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM 3-(N-morpholino)propanesulfonic acid, 4.3 mM Sodium Chloride, 10 mM Ammonium chloride, 0.41 mM Magnesium Sulfate Heptahydrate, 0.07 mM Calcium chloride dihydrate, MME Trace Minerals (0.5 mg/L EDTA tetrasodium tetrahydrate salt, 2 mg/L Ferric chloride, 0.05 mg/L Boric Acid, 0.05 mg/L Zinc chloride, 0.03 mg/L copper (II) chloride dihydrate, 0.05 mg/L Manganese (II) chloride tetrahydrate, 0.05 mg/L Diammonium molybdate, 0.05 mg/L Cobalt chloride hexahydrate, 0.05 mg/L Nickel (II) chloride hexahydrate)
Specific Phenotypes
For 4 genes in this experiment
For carbon source trans-aconitic acid in Pseudomonas sp. RS175
For carbon source trans-aconitic acid across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| DNA-binding regulatory proteins, strays | 1 |
| Flavodoxin | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| gallate degradation I | 4 | 1 | 1 |
| gallate degradation II | 5 | 1 | 1 |
| methylgallate degradation | 6 | 2 | 1 |
| protocatechuate degradation I (meta-cleavage pathway) | 8 | 3 | 1 |
| superpathway of vanillin and vanillate degradation | 10 | 4 | 1 |
| syringate degradation | 12 | 3 | 1 |