Experiment set1IT027 for Rhizobium sp. OAE497
D-Glucose-6-Phosphate sodium salt carbon source
Group: carbon sourceMedia: RCH2_defined_noCarbon + D-Glucose-6-Phosphate sodium salt (20 mM)
Culturing: Rhizobium_OAE497_ML5, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=700 rpm
By: Dennis/Robin on 4/4/22
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 15 genes in this experiment
For carbon source D-Glucose-6-Phosphate sodium salt in Rhizobium sp. OAE497
For carbon source D-Glucose-6-Phosphate sodium salt across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Pentose and glucuronate interconversions
- Pentose phosphate pathway
- Inositol phosphate metabolism
- Galactose metabolism
- Glycine, serine and threonine metabolism
- Streptomycin biosynthesis
- Lipopolysaccharide biosynthesis
- Glyoxylate and dicarboxylate metabolism
- Nicotinate and nicotinamide metabolism
- Biosynthesis of ansamycins
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| D-galacturonate degradation I | 5 | 4 | 3 |
| 4-deoxy-L-threo-hex-4-enopyranuronate degradation | 5 | 5 | 2 |
| superpathway of hexuronide and hexuronate degradation | 10 | 8 | 4 |
| β-D-glucuronide and D-glucuronate degradation | 3 | 2 | 1 |
| superpathway of β-D-glucuronosides degradation | 7 | 6 | 2 |
| D-fructuronate degradation | 4 | 4 | 1 |
| L-serine biosynthesis II | 4 | 1 | 1 |
| pectin degradation II | 5 | 2 | 1 |
| myo-inositol degradation II | 5 | 1 | 1 |
| superpathway of microbial D-galacturonate and D-glucuronate degradation | 31 | 16 | 5 |
| myo-inositol degradation I | 7 | 6 | 1 |
| 3,6-anhydro-α-L-galactopyranose degradation | 7 | 4 | 1 |
| alginate degradation | 7 | 2 | 1 |
| Entner-Doudoroff pathway III (semi-phosphorylative) | 9 | 7 | 1 |
| photorespiration I | 9 | 6 | 1 |
| photorespiration III | 9 | 6 | 1 |
| myo-, chiro- and scyllo-inositol degradation | 10 | 7 | 1 |
| formaldehyde assimilation I (serine pathway) | 13 | 5 | 1 |
| streptomycin biosynthesis | 18 | 3 | 1 |