Experiment setATCH129 for Dickeya dadantii 3937
M9+glycerol
Group: carbon sourceMedia: M9 minimal media_noCarbon + Glycerol (% 0.4) + kanamycin (50 ug/ml)
Culturing: Dda3937, 24 well plate
By: Tyler Helmann on 8/2/20
Media components: 2 mM Magnesium sulfate, 0.1 mM Calcium chloride, 12.8 g/L Sodium phosphate dibasic heptahydrate, 3 g/L Potassium phosphate monobasic, 0.5 g/L Sodium Chloride, 1 g/L Ammonium chloride
Specific Phenotypes
For 3 genes in this experiment
For carbon source Glycerol in Dickeya dadantii 3937
For carbon source Glycerol across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Acetoin, butanediol metabolism | 1 |
| Branched-Chain Amino Acid Biosynthesis | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Valine, leucine and isoleucine biosynthesis
- Butanoate metabolism
- C5-Branched dibasic acid metabolism
- Pantothenate and CoA biosynthesis
- Biosynthesis of alkaloids derived from histidine and purine
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| pyruvate fermentation to (R)-acetoin II | 2 | 2 | 1 |
| pyruvate fermentation to (R)-acetoin I | 3 | 3 | 1 |
| pyruvate fermentation to (S)-acetoin | 3 | 3 | 1 |
| L-valine biosynthesis | 4 | 4 | 1 |
| superpathway of (R,R)-butanediol biosynthesis | 5 | 5 | 1 |
| pyruvate fermentation to isobutanol (engineered) | 5 | 4 | 1 |
| superpathway of 2,3-butanediol biosynthesis | 6 | 4 | 1 |
| L-isoleucine biosynthesis IV | 6 | 4 | 1 |
| L-isoleucine biosynthesis I (from threonine) | 7 | 7 | 1 |
| L-isoleucine biosynthesis III | 7 | 4 | 1 |
| L-isoleucine biosynthesis II | 8 | 4 | 1 |
| superpathway of branched chain amino acid biosynthesis | 17 | 17 | 2 |
| superpathway of L-isoleucine biosynthesis I | 13 | 13 | 1 |
| superpathway of L-threonine metabolism | 18 | 14 | 1 |