Experiment set5H30 for Shewanella amazonensis SB2B
Anaerobic growth with fumarate as electron acceptor
Group: anaerobicMedia: ShewMM + Sodium Fumarate dibasic (20 mM)
Culturing: SB2B_ML5, hungate, Anaerobic, at 37 (C), shaken=orbital
Growth: about 3.2 generations
By: Kelly on 8/28/2013
Media components: 1.5 g/L Ammonium chloride, 1.75 g/L Sodium Chloride, 0.61 g/L Magnesium chloride hexahydrate, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM Sodium D,L-Lactate, 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 58 genes in this experiment
For anaerobic Sodium Fumarate dibasic in Shewanella amazonensis SB2B
For anaerobic Sodium Fumarate dibasic 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
- Butanoate metabolism
- Purine metabolism
- Arginine and proline metabolism
- 1,1,1-Trichloro-2,2-bis(4-chlorophenyl)ethane (DDT) degradation
- Lipopolysaccharide biosynthesis
- Ether lipid metabolism
- Pyruvate metabolism
- Benzoate degradation via CoA ligation
- Limonene and pinene degradation
- Biosynthesis of siderophore group nonribosomal peptides
- Biosynthesis of phenylpropanoids
- Citrate cycle (TCA cycle)
- Fructose and mannose metabolism
- Galactose metabolism
- Ascorbate and aldarate metabolism
- Fatty acid biosynthesis
- Oxidative phosphorylation
- Urea cycle and metabolism of amino groups
- Pyrimidine metabolism
- Lysine degradation
- Histidine metabolism
- Tyrosine metabolism
- Phenylalanine metabolism
- gamma-Hexachlorocyclohexane degradation
- Bisphenol A degradation
- Tryptophan metabolism
- Nucleotide sugars metabolism
- Aminosugars metabolism
- Glycerophospholipid metabolism
- Sphingolipid metabolism
- Glycosphingolipid biosynthesis - ganglio series
- 1- and 2-Methylnaphthalene degradation
- Tetrachloroethene degradation
- 1,4-Dichlorobenzene degradation
- Glyoxylate and dicarboxylate metabolism
- Propanoate metabolism
- Ethylbenzene degradation
- One carbon pool by folate
- Carbon fixation in photosynthetic organisms
- Reductive carboxylate cycle (CO2 fixation)
- Thiamine metabolism
- Riboflavin metabolism
- Nicotinate and nicotinamide metabolism
- Porphyrin and chlorophyll metabolism
- Diterpenoid biosynthesis
- Carotenoid biosynthesis - General
- Nitrogen metabolism
- Anthocyanin biosynthesis
- Alkaloid biosynthesis I
- Alkaloid biosynthesis II
- 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 ornithine, lysine and nicotinic acid
- Biosynthesis of plant hormones
MetaCyc Pathways
Pathways that contain genes with specific phenotypes: