Experiment set47S227 for Pseudomonas putida KT2440
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: Putida_ML5_PNNL, 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 6 genes in this experiment
For mixed carbon source Trisodium citrate dihydrate in Pseudomonas putida KT2440
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
- Phenylalanine metabolism
- Glutathione metabolism
- Styrene degradation
- Metabolism of xenobiotics by cytochrome P450
- Drug metabolism - cytochrome P450
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-tyrosine degradation I | 5 | 5 | 2 |
| plastoquinol-9 biosynthesis I | 3 | 1 | 1 |
| gentisate degradation I | 3 | 1 | 1 |
| 4-hydroxy-2-nonenal detoxification | 4 | 1 | 1 |
| pentachlorophenol degradation | 10 | 4 | 2 |
| superpathway of plastoquinol biosynthesis | 5 | 2 | 1 |
| 5-nitroanthranilate degradation | 6 | 2 | 1 |
| vitamin E biosynthesis (tocopherols) | 7 | 1 | 1 |
| glutathione-mediated detoxification I | 8 | 3 | 1 |
| L-phenylalanine degradation IV (mammalian, via side chain) | 9 | 6 | 1 |
| gliotoxin biosynthesis | 9 | 2 | 1 |
| glutathione-mediated detoxification II | 9 | 1 | 1 |
| 3-phenylpropanoate degradation | 10 | 4 | 1 |
| indole glucosinolate activation (intact plant cell) | 12 | 3 | 1 |
| camalexin biosynthesis | 12 | 2 | 1 |