Experiment set6S24 for Pseudomonas sp. RS175
Quinic Acid carbon source
Group: carbon sourceMedia: MME_noCarbon + Quinic Acid (10 mM)
Culturing: Pseudomonas_RS175_ML2, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C)
By: Andrew Frank on 1/31/23
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 3 genes in this experiment
For carbon source Quinic Acid in Pseudomonas sp. RS175
For carbon source Quinic Acid across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Ubiquinone and menaquinone biosynthesis
- Tyrosine metabolism
- Phenylalanine metabolism
- Phenylalanine, tyrosine and tryptophan biosynthesis
- Biosynthesis of phenylpropanoids
- Biosynthesis of alkaloids derived from shikimate pathway
- Biosynthesis of plant hormones
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| shikimate degradation II | 2 | 1 | 1 |
| plastoquinol-9 biosynthesis I | 3 | 1 | 1 |
| L-tyrosine degradation I | 5 | 5 | 1 |
| chorismate biosynthesis from 3-dehydroquinate | 5 | 5 | 1 |
| superpathway of plastoquinol biosynthesis | 5 | 2 | 1 |
| chorismate biosynthesis I | 7 | 7 | 1 |
| vitamin E biosynthesis (tocopherols) | 7 | 1 | 1 |
| L-phenylalanine degradation IV (mammalian, via side chain) | 9 | 5 | 1 |
| superpathway of L-phenylalanine biosynthesis | 10 | 10 | 1 |
| superpathway of L-tyrosine biosynthesis | 10 | 10 | 1 |
| chorismate biosynthesis II (archaea) | 12 | 8 | 1 |
| superpathway of L-tryptophan biosynthesis | 13 | 13 | 1 |
| superpathway of aromatic amino acid biosynthesis | 18 | 18 | 1 |
| superpathway of chorismate metabolism | 59 | 43 | 1 |