Experiment set2IT068 for Cupriavidus basilensis FW507-4G11
Sodium propionate carbon source
Group: carbon sourceMedia: RCH2_defined_noCarbon + Sodium propionate (20 mM), pH=7
Culturing: cupriavidus_4G11_ML11, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
By: Jayashree on 3/3/2015
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 5 genes in this experiment
For carbon source Sodium propionate in Cupriavidus basilensis FW507-4G11
For carbon source Sodium propionate across organisms
SEED Subsystems
Subsystem | #Specific |
---|---|
Biotin biosynthesis | 1 |
Nitric oxide synthase | 1 |
Oxidative stress | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Citrate cycle (TCA cycle)
- Ascorbate and aldarate metabolism
- Biosynthesis of steroids
- Ubiquinone and menaquinone biosynthesis
- Alanine and aspartate metabolism
- gamma-Hexachlorocyclohexane degradation
- Tryptophan metabolism
- Benzoxazinone biosynthesis
- Sphingolipid metabolism
- Pyruvate metabolism
- Naphthalene and anthracene degradation
- 1,4-Dichlorobenzene degradation
- Biotin metabolism
- Limonene and pinene degradation
- Diterpenoid biosynthesis
- Brassinosteroid biosynthesis
- Carotenoid biosynthesis - General
- Phenylpropanoid biosynthesis
- Biosynthesis of phenylpropanoids
- Biosynthesis of terpenoids and steroids
- Biosynthesis of plant hormones
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
Pathway | #Steps | #Present | #Specific |
---|---|---|---|
8-amino-7-oxononanoate biosynthesis III | 2 | 2 | 1 |
8-amino-7-oxononanoate biosynthesis II | 2 | 1 | 1 |
8-amino-7-oxononanoate biosynthesis IV | 5 | 4 | 1 |
biotin biosynthesis II | 6 | 5 | 1 |
incomplete reductive TCA cycle | 7 | 4 | 1 |
8-amino-7-oxononanoate biosynthesis I | 11 | 9 | 1 |
reductive TCA cycle I | 11 | 7 | 1 |
gluconeogenesis III | 12 | 11 | 1 |
(S)-lactate fermentation to propanoate, acetate and hydrogen | 13 | 7 | 1 |
biotin biosynthesis I | 15 | 13 | 1 |
gluconeogenesis II (Methanobacterium thermoautotrophicum) | 18 | 9 | 1 |
Methanobacterium thermoautotrophicum biosynthetic metabolism | 56 | 21 | 1 |