Experiment set14IT011 for Pseudomonas fluorescens SBW25-INTG
D,L-Malic Acid (C) and Ammonium chloride (N); with TAPS; with Sodium chloride
Group: stressMedia: MTM_noNitrogen_noCarbon + D,L-Malic Acid (20 mM) + Ammonium chloride (10 mM) + Sodium Chloride (400 mM), pH=8.5
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=1200 rpm
By: Joshua Elmore on September 1, 2021
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM TAPS sodium salt, 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 18 genes in this experiment
For stress D,L-Malic Acid in Pseudomonas fluorescens SBW25-INTG
For stress D,L-Malic 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:
- Glutamate metabolism
- Arginine and proline metabolism
- Tryptophan metabolism
- Pyruvate metabolism
- One carbon pool by folate
- Methane metabolism
- Folate biosynthesis
- Nitrogen metabolism
- Biosynthesis of phenylpropanoids
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
- Biosynthesis of alkaloids derived from terpenoid and polyketide
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-glutamate biosynthesis III | 1 | 1 | 1 |
| dTMP de novo biosynthesis (mitochondrial) | 3 | 3 | 1 |
| tetrahydrofolate biosynthesis I | 3 | 3 | 1 |
| L-glutamate and L-glutamine biosynthesis | 7 | 6 | 1 |
| partial TCA cycle (obligate autotrophs) | 8 | 8 | 1 |
| folate transformations III (E. coli) | 9 | 9 | 1 |
| TCA cycle VI (Helicobacter) | 9 | 7 | 1 |
| TCA cycle VII (acetate-producers) | 9 | 7 | 1 |
| TCA cycle I (prokaryotic) | 10 | 9 | 1 |
| superpathway of tetrahydrofolate biosynthesis | 10 | 8 | 1 |
| folate transformations II (plants) | 11 | 10 | 1 |
| superpathway of glyoxylate bypass and TCA | 12 | 11 | 1 |
| superpathway of tetrahydrofolate biosynthesis and salvage | 12 | 10 | 1 |
| superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass | 26 | 22 | 1 |
| superpathway of chorismate metabolism | 59 | 42 | 1 |