Experiment set24S408 for Pseudomonas fluorescens FW300-N2E2
Ying_sugar7 rep C; time point 2
Group: carbon sourceMedia: SDM_noCarbon + 1X Ying_sugar7
Culturing: pseudo6_N2E2_ML5b, tube, Aerobic, at 28 (C), shaken=180 rpm
By: Ying and Valentine on 1-Sep-23
Media components: 1.5 g/L Ammonium chloride, 0.6 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)
Ying_sugar7 1x includes: 366 uM Sucrose, 366 uM D-Glucose, 366 uM D-Trehalose dihydrate, 366 uM m-Inositol, 366 uM D-Xylose, 366 uM D-Mannitol, 366 uM N-Acetyl-D-Glucosamine
Specific Phenotypes
For 8 genes in this experiment
For carbon source Ying_sugar7 in Pseudomonas fluorescens FW300-N2E2
For carbon source Ying_sugar7 across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Maltose and Maltodextrin Utilization | 5 |
| Inositol catabolism | 3 |
| Bacterial Chemotaxis | 1 |
| Trehalose Uptake and Utilization | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Inositol phosphate metabolism
- Propanoate metabolism
- Alanine and aspartate metabolism
- Valine, leucine and isoleucine degradation
- beta-Alanine metabolism
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| β-alanine degradation II | 2 | 2 | 1 |
| β-alanine degradation I | 2 | 1 | 1 |
| myo-inositol degradation I | 7 | 7 | 3 |
| myo-, chiro- and scyllo-inositol degradation | 10 | 7 | 3 |
| acrylate degradation I | 5 | 3 | 1 |
| propanoyl-CoA degradation II | 5 | 3 | 1 |
| 2,4-dinitrotoluene degradation | 7 | 1 | 1 |
| L-valine degradation I | 8 | 6 | 1 |