Experiment set1IT083 for Pseudomonas putida KT2440
4-Hydroxyvalerate carbon source (40mM)
Group: carbon sourceMedia: RCH2_defined_noCarbon + 4-Hydroxyvalerate (40 mM), pH=7
Culturing: Putida_ML5, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 3.9 generations
By: Kelly on 7/20/20
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 27 genes in this experiment
For carbon source 4-Hydroxyvalerate in Pseudomonas putida KT2440
For carbon source 4-Hydroxyvalerate across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Benzoate degradation via CoA ligation
- Butanoate metabolism
- Biosynthesis of unsaturated fatty acids
- Fatty acid metabolism
- Cysteine metabolism
- Valine, leucine and isoleucine degradation
- alpha-Linolenic acid metabolism
- Pyruvate metabolism
- Biosynthesis of plant hormones
- Fructose and mannose metabolism
- Ascorbate and aldarate metabolism
- Fatty acid biosynthesis
- Fatty acid elongation in mitochondria
- Synthesis and degradation of ketone bodies
- Ubiquinone and menaquinone biosynthesis
- C21-Steroid hormone metabolism
- Purine metabolism
- Pyrimidine metabolism
- Glycine, serine and threonine metabolism
- Geraniol degradation
- Lysine degradation
- Benzoate degradation via hydroxylation
- Bisphenol A degradation
- Tryptophan metabolism
- Selenoamino acid metabolism
- Starch and sucrose metabolism
- Nucleotide sugars metabolism
- Polyketide sugar unit biosynthesis
- Aminosugars metabolism
- Linoleic acid metabolism
- Tetrachloroethene degradation
- Propanoate metabolism
- Ethylbenzene degradation
- Reductive carboxylate cycle (CO2 fixation)
- Pantothenate and CoA biosynthesis
- Retinol metabolism
- Terpenoid biosynthesis
- Limonene and pinene degradation
- Sulfur metabolism
- Alkaloid biosynthesis I
- Insect hormone biosynthesis
- Biosynthesis of type II polyketide products
- Biosynthesis of alkaloids derived from shikimate pathway
MetaCyc Pathways
Pathways that contain genes with specific phenotypes: