Experiment set10IT064 for Pseudomonas simiae WCS417
soil sample 7; outgrowth in LB
Group: soilMedia:
Culturing: fluoroDangl_ML3, potted plant
By: Dawn Chiniquy on 4-Apr-19
Specific Phenotypes
For 6 genes in this experiment
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Entner-Doudoroff Pathway | 1 |
| Glycolysis and Gluconeogenesis | 1 |
| Thiamin biosynthesis | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Glycolysis / Gluconeogenesis
- Galactose metabolism
- Starch and sucrose 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 I (low osmolarity) | 2 | 2 | 1 |
| trehalose degradation II (cytosolic) | 2 | 1 | 1 |
| GDP-α-D-glucose biosynthesis | 3 | 2 | 1 |
| trehalose degradation V | 3 | 2 | 1 |
| trehalose degradation IV | 3 | 1 | 1 |
| sucrose degradation III (sucrose invertase) | 4 | 3 | 1 |
| 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 |
| thiazole component of thiamine diphosphate biosynthesis I | 6 | 4 | 1 |
| UDP-N-acetyl-D-galactosamine biosynthesis II | 7 | 5 | 1 |
| thiazole component of thiamine diphosphate biosynthesis II | 7 | 5 | 1 |
| glycogen degradation I | 8 | 6 | 1 |
| sucrose biosynthesis II | 8 | 6 | 1 |
| chitin biosynthesis | 9 | 5 | 1 |
| 1,3-propanediol biosynthesis (engineered) | 9 | 4 | 1 |
| superpathway of thiamine diphosphate biosynthesis I | 10 | 8 | 1 |
| superpathway of thiamine diphosphate biosynthesis II | 11 | 9 | 1 |
| glycolysis III (from glucose) | 11 | 9 | 1 |
| homolactic fermentation | 12 | 9 | 1 |
| Bifidobacterium shunt | 15 | 12 | 1 |
| heterolactic fermentation | 18 | 14 | 1 |