Experiment set5S223 for Pseudomonas sp. RS175
mixed carbon sources Trisodium citrate dihydrate 10 mM and 3-Chloro-L-tyrosine 10 mM
Group: mixed carbon sourceMedia: MME_noCarbon + Trisodium citrate dihydrate (10 mM) + 3-Chloro-L-tyrosine (10 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 12 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
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Tyrosine metabolism
- Ubiquinone and menaquinone biosynthesis
- Histidine metabolism
- Tryptophan metabolism
- Benzoxazinone biosynthesis
- Glutathione metabolism
- Naphthalene and anthracene degradation
- Styrene degradation
- Folate biosynthesis
- Porphyrin and chlorophyll metabolism
- Carotenoid biosynthesis - General
- Phenylpropanoid biosynthesis
- Flavonoid biosynthesis
- Anthocyanin biosynthesis
- Alkaloid biosynthesis I
- Metabolism of xenobiotics by cytochrome P450
- Insect hormone biosynthesis
- Drug metabolism - cytochrome P450
- Biosynthesis of phenylpropanoids
- Biosynthesis of alkaloids derived from shikimate pathway
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| 4-aminobenzoate biosynthesis II | 2 | 2 | 1 |
| 4-aminobenzoate biosynthesis I | 2 | 2 | 1 |
| 4-hydroxy-2-nonenal detoxification | 4 | 1 | 1 |
| L-tyrosine degradation I | 5 | 5 | 1 |
| pentachlorophenol degradation | 10 | 3 | 2 |
| glutathione-mediated detoxification I | 8 | 3 | 1 |
| gliotoxin biosynthesis | 9 | 2 | 1 |
| glutathione-mediated detoxification II | 9 | 1 | 1 |
| superpathway of tetrahydrofolate biosynthesis | 10 | 8 | 1 |
| superpathway of candicidin biosynthesis | 11 | 4 | 1 |
| superpathway of tetrahydrofolate biosynthesis and salvage | 12 | 10 | 1 |
| indole glucosinolate activation (intact plant cell) | 12 | 3 | 1 |
| camalexin biosynthesis | 12 | 2 | 1 |
| superpathway of chorismate metabolism | 59 | 43 | 1 |