Experiment set39IT046 for Pseudomonas putida KT2440
DL-3-Hydroxybutyric acid sodium salt carbon source
Group: carbon sourceMedia: MOPS minimal media_noCarbon + DL-3-Hydroxybutyric acid sodium salt (10 mM)
Culturing: Putida_ML5_JBEI, 24-well plate, Aerobic, at 30 (C), shaken=200 rpm
By: Allie Pearson on 28-Sep
Media components: 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 1.32 mM Potassium phosphate dibasic, 0.01 mM Iron (II) sulfate heptahydrate, 9.5 mM Ammonium chloride, 0.276 mM Aluminum potassium sulfate dodecahydrate, 0.0005 mM Calcium chloride, 0.525 mM Magnesium chloride hexahydrate, 50 mM Sodium Chloride, 3e-09 M Ammonium heptamolybdate tetrahydrate, 4e-07 M Boric Acid, 3e-08 M Cobalt chloride hexahydrate, 1e-08 M Copper (II) sulfate pentahydrate, 8e-08 M Manganese (II) chloride tetrahydrate, 1e-08 M Zinc sulfate heptahydrate
Specific Phenotypes
For 9 genes in this experiment
For carbon source DL-3-Hydroxybutyric acid sodium salt in Pseudomonas putida KT2440
For carbon source DL-3-Hydroxybutyric acid sodium salt across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Synthesis and degradation of ketone bodies
- Butanoate metabolism
- Glycine, serine and threonine metabolism
- Valine, leucine and isoleucine degradation
- Geraniol degradation
- 1- and 2-Methylnaphthalene degradation
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| ketolysis | 3 | 3 | 2 |
| choline degradation I | 2 | 2 | 1 |
| glycine betaine biosynthesis II (Gram-positive bacteria) | 2 | 2 | 1 |
| glycine betaine biosynthesis I (Gram-negative bacteria) | 2 | 2 | 1 |
| choline-O-sulfate degradation | 3 | 3 | 1 |
| ketogenesis | 5 | 3 | 1 |
| TCA cycle VI (Helicobacter) | 9 | 7 | 1 |