Experiment set6IT059 for Burkholderia phytofirmans PsJN
2-Deoxy-D-ribonic acid lithium salt carbon source
Group: carbon sourceMedia: RCH2_defined_noCarbon + 2-Deoxy-D-ribonic acid lithium salt (5 mM), pH=7
Culturing: BFirm_ML3a, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Adam on 1-May-17
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 8 genes in this experiment
For carbon source 2-Deoxy-D-ribonic acid lithium salt in Burkholderia phytofirmans PsJN
For carbon source 2-Deoxy-D-ribonic acid lithium salt across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| D-Galacturonate and D-Glucuronate Utilization | 1 |
| Ketoisovalerate oxidoreductase | 1 |
| Protein degradation | 1 |
| Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Fatty acid metabolism
- Valine, leucine and isoleucine degradation
- Pyruvate metabolism
- Propanoate metabolism
- Glycolysis / Gluconeogenesis
- Fatty acid elongation in mitochondria
- Synthesis and degradation of ketone bodies
- Geraniol degradation
- Lysine degradation
- Benzoate degradation via hydroxylation
- Tryptophan metabolism
- alpha-Linolenic acid metabolism
- Benzoate degradation via CoA ligation
- Ethylbenzene degradation
- Butanoate metabolism
- Reductive carboxylate cycle (CO2 fixation)
- Terpenoid biosynthesis
- Biosynthesis of unsaturated fatty acids
- Biosynthesis of plant hormones
MetaCyc Pathways
Pathways that contain genes with specific phenotypes: