Experiment set12IT015 for Paraburkholderia graminis OAS925
RCH2_defined_glucose_5mM with caffeic acid 0.5 mM
Group: stressMedia: RCH2_defined_glucose_5mM + caffeic acid (0.5 mM) + Dimethyl Sulfoxide (1 vol%)
Culturing: Burkholderia_OAS925_ML2, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Albina on 15-Mar-22
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 5 mM D-Glucose, 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 10 genes in this experiment
For stress caffeic acid in Paraburkholderia graminis OAS925
For stress caffeic acid across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| superoxide radicals degradation | 2 | 2 | 1 |
| methanol oxidation to formaldehyde IV | 2 | 1 | 1 |
| ethanol degradation IV | 3 | 3 | 1 |
| ferulate degradation | 3 | 3 | 1 |
| umbelliferone biosynthesis | 3 | 2 | 1 |
| reactive oxygen species degradation | 4 | 4 | 1 |
| xanthohumol biosynthesis | 4 | 1 | 1 |
| naringenin biosynthesis (engineered) | 4 | 1 | 1 |
| 4-hydroxybenzoate biosynthesis III (plants) | 5 | 4 | 1 |
| 4-coumarate degradation (aerobic) | 5 | 2 | 1 |
| chlorogenic acid biosynthesis II | 5 | 1 | 1 |
| flavonoid biosynthesis | 5 | 1 | 1 |
| phaselate biosynthesis | 5 | 1 | 1 |
| 6-gingerol analog biosynthesis (engineered) | 6 | 3 | 1 |
| 4-coumarate degradation (anaerobic) | 6 | 1 | 1 |
| chlorogenic acid biosynthesis I | 8 | 1 | 1 |
| avenanthramide biosynthesis | 9 | 1 | 1 |
| rosmarinic acid biosynthesis I | 10 | 2 | 1 |
| curcuminoid biosynthesis | 10 | 1 | 1 |
| coumarins biosynthesis (engineered) | 13 | 5 | 1 |
| superpathway of rosmarinic acid biosynthesis | 14 | 2 | 1 |
| flavonoid di-C-glucosylation | 15 | 3 | 1 |
| monolignol biosynthesis | 15 | 1 | 1 |
| suberin monomers biosynthesis | 20 | 5 | 1 |