Experiment set4IT084 for Pseudomonas fluorescens FW300-N1B4
D-Mannose carbon source
Group: carbon sourceMedia: RCH2_defined_noCarbon + D-Mannose (20 mM), pH=7
Culturing: pseudo1_N1B4_ML1, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
By: Mark on 12/16/2014
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)
Growth plate: Cplate2 B4
Specific Phenotypes
For 5 genes in this experiment
For carbon source D-Mannose in Pseudomonas fluorescens FW300-N1B4
For carbon source D-Mannose across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Ribitol, Xylitol, Arabitol, Mannitol and Sorbitol utilization | 2 |
| D-Tagatose and Galactitol Utilization | 1 |
| Mannitol Utilization | 1 |
| Sialic Acid Metabolism | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Fructose and mannose metabolism
- Nucleotide sugars metabolism
- Aminosugars metabolism
- Ascorbate and aldarate metabolism
- C21-Steroid hormone metabolism
- Glycine, serine and threonine metabolism
- Bisphenol A degradation
- Polyketide sugar unit biosynthesis
- Linoleic acid metabolism
- Tetrachloroethene degradation
- Benzoate degradation via CoA ligation
- Butanoate metabolism
- Retinol metabolism
- Alkaloid biosynthesis I
- Insect hormone biosynthesis
- Biosynthesis of unsaturated fatty acids
- Biosynthesis of type II polyketide products
- Biosynthesis of alkaloids derived from shikimate pathway
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| methylglyoxal degradation III | 2 | 1 | 1 |
| N-acetylneuraminate and N-acetylmannosamine degradation II | 3 | 1 | 1 |
| D-fructuronate degradation | 4 | 3 | 1 |
| sulfoquinovose degradation III | 4 | 1 | 1 |
| mannitol cycle | 5 | 4 | 1 |
| sulfoquinovose degradation VI | 5 | 1 | 1 |
| sulfoquinovose degradation I | 5 | 1 | 1 |
| superpathway of β-D-glucuronosides degradation | 7 | 4 | 1 |
| sulfoquinovose degradation V | 7 | 1 | 1 |
| superpathway of methylglyoxal degradation | 8 | 4 | 1 |
| superpathway of hexuronide and hexuronate degradation | 10 | 4 | 1 |
| detoxification of reactive carbonyls in chloroplasts | 10 | 4 | 1 |
| superpathway of microbial D-galacturonate and D-glucuronate degradation | 31 | 14 | 1 |