Experiment set1IT003 for Enterobacter asburiae PDN3
Plant=poplar; PlantTreatment=None; Sample=roots; GrowthSubstrate=quartz_sand; Collection=outgrowth_in_MGL; Time=7_days
Group: in plantaMedia: MS_media + Plant=poplar; PlantTreatment=None; Sample=roots; GrowthSubstrate=quartz_sand; Collection=outgrowth_in_MGL; Time=7_days
Culturing: EnterPDN3_ML4
By: Doty lab on 5/1/20
Media components: 1650 mg/L Ammonium Nitrate, 6.2 mg/L Boric Acid, 332.2 mg/L Calcium chloride, 0.025 mg/L Cobalt chloride hexahydrate, 0.025 mg/L Copper (II) sulfate pentahydrate, 37.26 mg/L EDTA (disodium salt), 27.8 mg/L Iron (II) sulfate heptahydrate, 2 mg/L Glycine, 180.7 mg/L Magnesium sulfate, 16.9 mg/L Manganese sulfate, 100 mg/L m-Inositol, 0.5 mg/L Nicotinic Acid, 0.83 mg/L Potassium iodide, 1900 mg/L Potassium nitrate, 170 mg/L Potassium phosphate monobasic, 0.5 mg/L Pyridoxine HCl, 0.25 mg/L Sodium Molybdate Dihydrate, 0.1 mg/L Thiamine HCl, 8.6 mg/L Zinc sulfate heptahydrate, 20 g/L Sucrose
Specific Phenotypes
For 5 genes in this experiment
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Autoinducer 2 (AI-2) transport and processing (lsrACDBFGE operon) | 1 |
| Nitrate and nitrite ammonification | 1 |
| Xylose utilization | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| NADH to nitrate electron transfer | 2 | 2 | 1 |
| nitrate reduction VIII (dissimilatory) | 2 | 2 | 1 |
| nitrate reduction III (dissimilatory) | 2 | 2 | 1 |
| nitrate reduction IX (dissimilatory) | 2 | 2 | 1 |
| D-xylose degradation I | 2 | 2 | 1 |
| nitrate reduction VIIIb (dissimilatory) | 2 | 2 | 1 |
| autoinducer AI-2 degradation | 3 | 3 | 1 |
| superpathway of glucose and xylose degradation | 17 | 16 | 1 |
| superpathway of pentose and pentitol degradation | 42 | 13 | 1 |