Experiment set4S13 for Pseudomonas sp. RS175
D-Trehalose dihydrate carbon source 5 mM
Group: carbon sourceMedia: MME_noCarbon + D-Trehalose dihydrate (5 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 10 genes in this experiment
For carbon source D-Trehalose dihydrate in Pseudomonas sp. RS175
For carbon source D-Trehalose dihydrate across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Entner-Doudoroff Pathway | 1 |
| Glycolysis and Gluconeogenesis | 1 |
| Rhamnose containing glycans | 1 |
| Teichoic and lipoteichoic acids biosynthesis | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Starch and sucrose metabolism
- Glycolysis / Gluconeogenesis
- Galactose metabolism
- Nucleotide sugars metabolism
- Streptomycin biosynthesis
- Biosynthesis of phenylpropanoids
- Biosynthesis of terpenoids and steroids
- Biosynthesis of alkaloids derived from shikimate pathway
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
- Biosynthesis of alkaloids derived from histidine and purine
- Biosynthesis of alkaloids derived from terpenoid and polyketide
- Biosynthesis of plant hormones
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| trehalose degradation II (cytosolic) | 2 | 2 | 2 |
| trehalose degradation VI (periplasmic) | 2 | 2 | 1 |
| trehalose degradation I (low osmolarity) | 2 | 1 | 1 |
| trehalose degradation V | 3 | 2 | 1 |
| GDP-α-D-glucose biosynthesis | 3 | 2 | 1 |
| trehalose degradation IV | 3 | 1 | 1 |
| sucrose degradation III (sucrose invertase) | 4 | 3 | 1 |
| chitin biosynthesis | 9 | 6 | 2 |
| glucose and glucose-1-phosphate degradation | 5 | 4 | 1 |
| glycogen degradation II | 6 | 5 | 1 |
| UDP-N-acetyl-D-glucosamine biosynthesis II | 6 | 4 | 1 |
| UDP-N-acetyl-D-galactosamine biosynthesis II | 7 | 5 | 1 |
| glycogen degradation I | 8 | 7 | 1 |
| sucrose biosynthesis II | 8 | 6 | 1 |
| 1,3-propanediol biosynthesis (engineered) | 9 | 4 | 1 |
| Escherichia coli serotype O:8 O antigen biosynthesis | 9 | 2 | 1 |
| glycolysis III (from glucose) | 11 | 9 | 1 |
| homolactic fermentation | 12 | 10 | 1 |
| Bifidobacterium shunt | 15 | 15 | 1 |
| heterolactic fermentation | 18 | 16 | 1 |