Experiment set22IT008 for Pseudomonas fluorescens SBW25-INTG
2-Deoxy-D-Ribose 10 mM carbon source
Group: carbon sourceMedia: MME_noNitrogen_noCarbon + 2-Deoxy-D-Ribose (10 mM) + Ammonium chloride (10 mM), pH=7
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=1200 rpm
By: Joshua Elmore on 8-Mar-22
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM 3-(N-morpholino)propanesulfonic acid, 4.3 mM Sodium Chloride, 0.41 mM Magnesium Sulfate Heptahydrate, 0.07 mM Calcium chloride dihydrate, MME Trace Minerals (0.5 mg/L EDTA tetrasodium tetrahydrate salt, 2 mg/L Ferric chloride, 0.05 mg/L Boric Acid, 0.05 mg/L Zinc chloride, 0.03 mg/L copper (II) chloride dihydrate, 0.05 mg/L Manganese (II) chloride tetrahydrate, 0.05 mg/L Diammonium molybdate, 0.05 mg/L Cobalt chloride hexahydrate, 0.05 mg/L Nickel (II) chloride hexahydrate)
Specific Phenotypes
For 5 genes in this experiment
For carbon source 2-Deoxy-D-Ribose in Pseudomonas fluorescens SBW25-INTG
For carbon source 2-Deoxy-D-Ribose across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Glycine, serine and threonine metabolism
- Glycerolipid metabolism
- Glyoxylate and dicarboxylate metabolism
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| 2-O-α-mannosyl-D-glycerate degradation | 2 | 1 | 1 |
| 2-deoxy-D-ribose degradation II | 8 | 7 | 2 |
| D-glucarate degradation I | 4 | 3 | 1 |
| D-galactarate degradation I | 4 | 3 | 1 |
| glycolate and glyoxylate degradation I | 4 | 3 | 1 |
| superpathway of D-glucarate and D-galactarate degradation | 5 | 4 | 1 |
| superpathway of glycol metabolism and degradation | 7 | 5 | 1 |
| Entner-Doudoroff pathway II (non-phosphorylative) | 9 | 6 | 1 |
| photorespiration III | 9 | 5 | 1 |
| photorespiration I | 9 | 5 | 1 |
| photorespiration II | 10 | 6 | 1 |
| formaldehyde assimilation I (serine pathway) | 13 | 6 | 1 |
| superpathway of microbial D-galacturonate and D-glucuronate degradation | 31 | 13 | 1 |