Experiment set1IT002 for Pseudomonas fluorescens FW300-N2C3
D-Fructose carbon source
Group: carbon sourceMedia: RCH2_defined_noCarbon + D-Fructose (20 mM), pH=7.2
Culturing: pseudo5_N2-C3_1_ML2, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 6.4 generations
By: Jayashree on 4/28/2014
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 D-Fructose in Pseudomonas fluorescens FW300-N2C3
For carbon source D-Fructose across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Fructose and mannose metabolism
- Starch and sucrose metabolism
- Nucleotide sugars metabolism
- Glycolysis / Gluconeogenesis
- Pentose phosphate pathway
- Pentose and glucuronate interconversions
- Galactose metabolism
- Ascorbate and aldarate metabolism
- Aminosugars metabolism
- Lipopolysaccharide biosynthesis
- Nicotinate and nicotinamide metabolism
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| fructose degradation | 1 | 1 | 1 |
| D-xylose degradation I | 2 | 2 | 1 |
| D-arabinitol degradation I | 2 | 1 | 1 |
| xylitol degradation I | 2 | 1 | 1 |
| D-sorbitol degradation I | 3 | 2 | 1 |
| sucrose degradation I (sucrose phosphotransferase) | 3 | 1 | 1 |
| sucrose degradation III (sucrose invertase) | 4 | 4 | 1 |
| sucrose degradation IV (sucrose phosphorylase) | 4 | 3 | 1 |
| D-galactosamine and N-acetyl-D-galactosamine degradation | 4 | 2 | 1 |
| sucrose degradation VII (sucrose 3-dehydrogenase) | 4 | 1 | 1 |
| sucrose degradation II (sucrose synthase) | 5 | 4 | 1 |
| mannitol cycle | 5 | 3 | 1 |
| galactitol degradation | 5 | 2 | 1 |
| N-acetyl-D-galactosamine degradation | 5 | 2 | 1 |
| lactose degradation I | 5 | 1 | 1 |
| superpathway of glucose and xylose degradation | 17 | 17 | 1 |
| heterolactic fermentation | 18 | 16 | 1 |
| superpathway of hexitol degradation (bacteria) | 18 | 12 | 1 |
| superpathway of anaerobic sucrose degradation | 19 | 15 | 1 |
| superpathway of pentose and pentitol degradation | 42 | 15 | 1 |