Experiment set3IT078 for Pseudomonas sp. RS175
caffeic acid carbon source 2.5 mM
Group: carbon sourceMedia: MME_noCarbon + caffeic acid (2.5 mM), pH=7
Culturing: Pseudomonas_RS175_ML2, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Joshua Elmore on 1-July-22
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM 3-(N-morpholino)propanesulfonic acid, 4.3 mM Sodium Chloride, 10 mM Ammonium 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 14 genes in this experiment
For carbon source caffeic acid in Pseudomonas sp. RS175
For carbon source caffeic acid across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Terminal cytochrome C oxidases | 2 |
| Histidine Degradation | 1 |
| Proteasome bacterial | 1 |
| Proteolysis in bacteria, ATP-dependent | 1 |
| Universal stress protein family | 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 |
|---|---|---|---|
| cis-cyclopropane fatty acid (CFA) biosynthesis | 1 | 1 | 1 |
| arsenite to oxygen electron transfer | 2 | 1 | 1 |
| sterculate biosynthesis | 2 | 1 | 1 |
| arsenite to oxygen electron transfer (via azurin) | 3 | 1 | 1 |
| L-histidine degradation I | 4 | 4 | 1 |
| aerobic respiration I (cytochrome c) | 4 | 3 | 1 |
| aerobic respiration II (cytochrome c) (yeast) | 4 | 3 | 1 |
| L-histidine degradation II | 5 | 5 | 1 |
| L-histidine degradation III | 6 | 4 | 1 |
| Fe(II) oxidation | 6 | 3 | 1 |
| L-histidine degradation VI | 8 | 7 | 1 |
| mycolate biosynthesis | 205 | 20 | 3 |
| superpathway of mycolate biosynthesis | 239 | 21 | 3 |