Experiment set6IT036 for Phaeobacter inhibens DSM 17395
L-Proline carbon source
Group: carbon sourceMedia: DinoMM_noCarbon_HighNutrient + L-Proline (20 mM), pH=7
Culturing: Phaeo_ML1, tube, Aerobic, at 25 (C), shaken=200 rpm
Growth: about 4.1 generations
By: Adam on marchapr14
Media components: 20 g/L Sea salts, 0.3 g/L Ammonium Sulfate, 0.1 g/L Potassium phosphate monobasic, 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 L-Proline in Phaeobacter inhibens DSM 17395
For carbon source L-Proline across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Formate hydrogenase | 3 |
| ABC transporter tungstate (TC 3.A.1.6.2) | 2 |
| Molybdenum cofactor biosynthesis | 2 |
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 |
|---|---|---|---|
| bis(guanylyl molybdenum cofactor) biosynthesis | 2 | 2 | 2 |
| guanylyl molybdenum cofactor biosynthesis | 1 | 1 | 1 |
| formate oxidation to CO2 | 1 | 1 | 1 |
| bis(guanylyl tungstenpterin) cofactor biosynthesis | 1 | 1 | 1 |
| oxalate degradation VI | 4 | 1 | 1 |
| oxalate degradation III | 5 | 1 | 1 |
| superpathway of C1 compounds oxidation to CO2 | 12 | 4 | 1 |
| purine nucleobases degradation I (anaerobic) | 15 | 5 | 1 |
| purine nucleobases degradation II (anaerobic) | 24 | 15 | 1 |