Experiment set13IT007 for Pseudomonas fluorescens SBW25-INTG
Glucose (C) and Ammonium chloride (N); with MOPS; with Sodium chloride
Group: stressMedia: MME_noNitrogen_noCarbon + D-Glucose (10 mM) + Ammonium chloride (10 mM) + Sodium Chloride (400 mM), pH=7
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 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 17 genes in this experiment
For stress D-Glucose in Pseudomonas fluorescens SBW25-INTG
For stress D-Glucose across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Histidine metabolism
- Urea cycle and metabolism of amino groups
- Arginine and proline metabolism
- Tyrosine metabolism
- Phenylalanine metabolism
- Tryptophan metabolism
- Benzoate degradation via CoA ligation
- Carotenoid biosynthesis - General
- Anthocyanin biosynthesis
- Alkaloid biosynthesis I
- Biosynthesis of plant hormones
- Pentose phosphate pathway
- Fatty acid biosynthesis
- Ubiquinone and menaquinone biosynthesis
- Lysine degradation
- Benzoxazinone biosynthesis
- Cyanoamino acid metabolism
- Glutathione metabolism
- Lipopolysaccharide biosynthesis
- Glycerophospholipid metabolism
- Ether lipid metabolism
- Glycosphingolipid biosynthesis - ganglio series
- 1- and 2-Methylnaphthalene degradation
- Naphthalene and anthracene degradation
- Ethylbenzene degradation
- Styrene degradation
- Butanoate metabolism
- Porphyrin and chlorophyll metabolism
- Limonene and pinene degradation
- Diterpenoid biosynthesis
- Nitrogen metabolism
- Phenylpropanoid biosynthesis
- Flavonoid biosynthesis
- Alkaloid biosynthesis II
- Insect hormone biosynthesis
- Biosynthesis of unsaturated fatty acids
- Biosynthesis of type II polyketide backbone
- Biosynthesis of terpenoids and steroids
- Biosynthesis of alkaloids derived from shikimate pathway
- Biosynthesis of alkaloids derived from histidine and purine
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| acrylonitrile degradation I | 2 | 2 | 1 |
| indole-3-acetate biosynthesis IV (bacteria) | 2 | 2 | 1 |
| indole-3-acetate biosynthesis III (bacteria) | 2 | 2 | 1 |
| glycine biosynthesis II | 3 | 3 | 1 |
| pentose phosphate pathway (oxidative branch) I | 3 | 3 | 1 |
| L-arginine degradation IV (arginine decarboxylase/agmatine deiminase pathway) | 3 | 3 | 1 |
| glycine cleavage | 3 | 3 | 1 |
| putrescine biosynthesis II | 3 | 3 | 1 |
| L-arginine degradation X (arginine monooxygenase pathway) | 3 | 2 | 1 |
| superpathway of acrylonitrile degradation | 3 | 2 | 1 |
| L-histidine degradation I | 4 | 4 | 1 |
| L-histidine degradation II | 5 | 5 | 1 |
| L-histidine degradation III | 6 | 4 | 1 |
| pentose phosphate pathway | 8 | 8 | 1 |
| L-histidine degradation VI | 8 | 7 | 1 |
| superpathway of polyamine biosynthesis II | 8 | 6 | 1 |
| indole-3-acetate biosynthesis II | 12 | 5 | 1 |
| superpathway of glucose and xylose degradation | 17 | 16 | 1 |