Experiment set17IT008 for Klebsiella michiganensis M5al
RCH2_defined_1percent_glucose with Sodium Chloride 600 mM
Group: stressMedia: RCH2_defined_1percent_glucose + Sodium Chloride (600 mM)
Culturing: Koxy_ML2a, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Robin Herbert on 3/21/19
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 55.5 mM D-Glucose, 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 18 genes in this experiment
For stress Sodium Chloride in Klebsiella michiganensis M5al
For stress Sodium Chloride across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Ubiquinone and menaquinone biosynthesis
- Glycine, serine and threonine metabolism
- Methionine metabolism
- Histidine metabolism
- Tyrosine metabolism
- Tryptophan metabolism
- Benzoxazinone biosynthesis
- Glutathione metabolism
- Naphthalene and anthracene degradation
- Glyoxylate and dicarboxylate metabolism
- Methane metabolism
- Carbon fixation in photosynthetic organisms
- Nicotinate and nicotinamide metabolism
- Porphyrin and chlorophyll metabolism
- Carotenoid biosynthesis - General
- Phenylpropanoid biosynthesis
- Flavonoid biosynthesis
- Anthocyanin biosynthesis
- Alkaloid biosynthesis I
- Aminoacyl-tRNA biosynthesis
- Insect hormone biosynthesis
- Biosynthesis of alkaloids derived from shikimate pathway
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| formate oxidation to CO2 | 1 | 1 | 1 |
| L-threonine degradation II | 2 | 2 | 1 |
| NAD phosphorylation and transhydrogenation | 2 | 2 | 1 |
| NAD phosphorylation and dephosphorylation | 3 | 3 | 1 |
| oxalate degradation VI | 4 | 1 | 1 |
| oxalate degradation III | 5 | 1 | 1 |
| NAD(P)/NADPH interconversion | 6 | 4 | 1 |
| myxochelin A and B biosynthesis | 9 | 2 | 1 |
| Rubisco shunt | 10 | 9 | 1 |
| superpathway of C1 compounds oxidation to CO2 | 12 | 4 | 1 |
| Calvin-Benson-Bassham cycle | 13 | 10 | 1 |
| purine nucleobases degradation I (anaerobic) | 15 | 6 | 1 |
| oxygenic photosynthesis | 17 | 11 | 1 |
| superpathway of L-threonine metabolism | 18 | 18 | 1 |
| tRNA charging | 21 | 21 | 1 |
| purine nucleobases degradation II (anaerobic) | 24 | 17 | 1 |
| ethene biosynthesis V (engineered) | 25 | 18 | 1 |
| photosynthetic 3-hydroxybutanoate biosynthesis (engineered) | 26 | 19 | 1 |
| 1-butanol autotrophic biosynthesis (engineered) | 27 | 19 | 1 |