Experiment set17IT053 for Pseudomonas fluorescens SBW25-INTG
4-Hydroxybenzoic Acid (C) 1.5 mM
Group: carbon sourceMedia: MME_noNitrogen_noCarbon + 4-Hydroxybenzoic Acid (1.5 mM) + Ammonium chloride (10 mM)
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=1200 rpm
By: Joshua Elmore on October 1, 2021
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM 3-(N-morpholino)propanesulfonic acid, 4.3 mM Sodium 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 15 genes in this experiment
For carbon source 4-Hydroxybenzoic Acid in Pseudomonas fluorescens SBW25-INTG
For carbon source 4-Hydroxybenzoic Acid across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Valine, leucine and isoleucine degradation
- Synthesis and degradation of ketone bodies
- Butanoate metabolism
- Oxidative phosphorylation
- Geraniol degradation
- 1- and 2-Methylnaphthalene degradation
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| 2-oxoisovalerate decarboxylation to isobutanoyl-CoA | 3 | 3 | 2 |
| L-leucine degradation I | 6 | 5 | 4 |
| arsenite to oxygen electron transfer | 2 | 1 | 1 |
| mevalonate degradation | 2 | 1 | 1 |
| ketolysis | 3 | 3 | 1 |
| arsenite to oxygen electron transfer (via azurin) | 3 | 1 | 1 |
| aerobic respiration I (cytochrome c) | 4 | 3 | 1 |
| aerobic respiration II (cytochrome c) (yeast) | 4 | 3 | 1 |
| ketogenesis | 5 | 3 | 1 |
| ferrichrome A biosynthesis | 5 | 2 | 1 |
| Fe(II) oxidation | 6 | 3 | 1 |
| TCA cycle VI (Helicobacter) | 9 | 7 | 1 |
| cis-geranyl-CoA degradation | 9 | 4 | 1 |