Experiment set4IT087 for Pseudomonas fluorescens SBW25
N-Acetyl-D-Glucosamine carbon source
Group: carbon sourceMedia: RCH2_defined_noCarbon + N-Acetyl-D-Glucosamine (20 mM), pH=7
Culturing: PseudoSBW25_ML4, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Adam on 14-Mar-20
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 30 mM PIPES sesquisodium salt, Wolfe's mineral mix (0.03 g/L Magnesium Sulfate Heptahydrate, 0.015 g/L Nitrilotriacetic acid, 0.01 g/L Sodium Chloride, 0.005 g/L Manganese (II) sulfate monohydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc sulfate heptahydrate, 0.001 g/L Calcium chloride dihydrate, 0.001 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.0002 g/L Aluminum potassium sulfate dodecahydrate, 0.0001 g/L Copper (II) sulfate pentahydrate, 0.0001 g/L Boric Acid, 0.0001 g/L Sodium Molybdate Dihydrate, 0.003 mg/L Sodium selenite pentahydrate), Wolfe's vitamin mix (0.1 mg/L Pyridoxine HCl, 0.05 mg/L 4-Aminobenzoic acid, 0.05 mg/L Lipoic acid, 0.05 mg/L Nicotinic Acid, 0.05 mg/L Riboflavin, 0.05 mg/L Thiamine HCl, 0.05 mg/L calcium pantothenate, 0.02 mg/L biotin, 0.02 mg/L Folic Acid, 0.001 mg/L Cyanocobalamin)
Specific Phenotypes
For 8 genes in this experiment
For carbon source N-Acetyl-D-Glucosamine in Pseudomonas fluorescens SBW25
For carbon source N-Acetyl-D-Glucosamine across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Oxidative stress | 1 |
| Potassium homeostasis | 1 |
| Queuosine-Archaeosine Biosynthesis | 1 |
| Transport of Manganese | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Purine metabolism
- Glycine, serine and threonine metabolism
- Porphyrin and chlorophyll metabolism
- Biosynthesis of alkaloids derived from histidine and purine
- Biosynthesis of plant hormones
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| D-serine degradation | 3 | 3 | 3 |
| L-serine degradation | 3 | 3 | 2 |
| L-cysteine degradation II | 3 | 3 | 2 |
| L-tryptophan degradation II (via pyruvate) | 3 | 2 | 2 |
| felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis | 5 | 2 | 2 |
| L-methionine biosynthesis II | 6 | 5 | 2 |
| glycine betaine degradation III | 7 | 7 | 2 |
| queuosine biosynthesis I (de novo) | 4 | 4 | 1 |
| glycine betaine degradation I | 8 | 6 | 2 |
| L-mimosine degradation | 8 | 4 | 2 |
| glutathione-mediated detoxification I | 8 | 3 | 2 |
| queuosine biosynthesis III (queuosine salvage) | 5 | 3 | 1 |
| superpathway of L-lysine, L-threonine and L-methionine biosynthesis II | 15 | 13 | 2 |
| purine nucleobases degradation II (anaerobic) | 24 | 16 | 2 |