Experiment set5S205 for Pseudomonas sp. RS175
mixed carbon sources Trisodium citrate dihydrate 10 mM and L-Phenylalanine 5 mM
Group: mixed carbon sourceMedia: MME_noCarbon + Trisodium citrate dihydrate (10 mM) + L-Phenylalanine (5 mM)
Culturing: Pseudomonas_RS175_ML2, 96 deep well, Aerobic, at 30 (C), shaken=1200 rpm
By: Andrew Frank on 11/17/23
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 mixed carbon source Trisodium citrate dihydrate in Pseudomonas sp. RS175
For mixed carbon source Trisodium citrate dihydrate across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Lysine Biosynthesis DAP Pathway | 1 |
| Thiamin biosynthesis | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Lysine biosynthesis
- Tyrosine metabolism
- Glutathione metabolism
- Styrene degradation
- Thiamine metabolism
- Metabolism of xenobiotics by cytochrome P450
- Drug metabolism - cytochrome P450
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| glyphosate degradation II | 1 | 1 | 1 |
| 4-hydroxy-2-nonenal detoxification | 4 | 1 | 1 |
| L-tyrosine degradation I | 5 | 5 | 1 |
| pentachlorophenol degradation | 10 | 3 | 2 |
| thiazole component of thiamine diphosphate biosynthesis II | 7 | 4 | 1 |
| glutathione-mediated detoxification I | 8 | 3 | 1 |
| butanol and isobutanol biosynthesis (engineered) | 8 | 3 | 1 |
| L-lysine biosynthesis I | 9 | 9 | 1 |
| gliotoxin biosynthesis | 9 | 2 | 1 |
| glutathione-mediated detoxification II | 9 | 1 | 1 |
| superpathway of thiamine diphosphate biosynthesis II | 11 | 8 | 1 |
| indole glucosinolate activation (intact plant cell) | 12 | 3 | 1 |
| camalexin biosynthesis | 12 | 2 | 1 |
| superpathway of L-lysine, L-threonine and L-methionine biosynthesis I | 18 | 16 | 1 |
| aspartate superpathway | 25 | 22 | 1 |