Experiment set4S12 for Pseudomonas sp. RS175
D-Xylose carbon source 10 mM
Group: carbon sourceMedia: MME_noCarbon + D-Xylose (10 mM)
Culturing: Pseudomonas_RS175_ML2, 96 deep well, Aerobic, at 30 (C), shaken=1200 rpm
By: Andrew Frank on 31-January-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 14 genes in this experiment
For carbon source D-Xylose in Pseudomonas sp. RS175
For carbon source D-Xylose across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Fructose and mannose metabolism
- Pentose and glucuronate interconversions
- Glycolysis / Gluconeogenesis
- Ascorbate and aldarate metabolism
- C21-Steroid hormone metabolism
- Glycine, serine and threonine metabolism
- Bisphenol A degradation
- Nucleotide sugars metabolism
- Polyketide sugar unit biosynthesis
- Aminosugars metabolism
- Linoleic acid metabolism
- Tetrachloroethene degradation
- Benzoate degradation via CoA ligation
- Butanoate metabolism
- Retinol metabolism
- Alkaloid biosynthesis I
- Insect hormone biosynthesis
- Biosynthesis of unsaturated fatty acids
- Biosynthesis of type II polyketide products
- Biosynthesis of alkaloids derived from shikimate pathway
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| D-xylose degradation I | 2 | 2 | 2 |
| trehalose degradation VI (periplasmic) | 2 | 2 | 1 |
| D-arabinitol degradation I | 2 | 1 | 1 |
| xylitol degradation I | 2 | 1 | 1 |
| D-fructuronate degradation | 4 | 3 | 1 |
| mannitol cycle | 5 | 4 | 1 |
| D-galactose degradation I (Leloir pathway) | 5 | 3 | 1 |
| superpathway of β-D-glucuronosides degradation | 7 | 4 | 1 |
| superpathway of glucose and xylose degradation | 17 | 17 | 2 |
| superpathway of hexuronide and hexuronate degradation | 10 | 4 | 1 |
| superpathway of pentose and pentitol degradation | 42 | 14 | 2 |
| superpathway of microbial D-galacturonate and D-glucuronate degradation | 31 | 14 | 1 |