Experiment set8H34 for Pseudomonas stutzeri RCH2
RCH2 defined media with Polymyxin B sulfate 0.0001 mg/ml
Group: stressMedia: RCH2_defined_no_vitamin + Polymyxin B sulfate (1e-04 mg/ml), pH=7.2
Culturing: psRCH2_ML7c, 48 well microplate; Tecan Infinite F200, Aerobic, at 30 (C), shaken=orbital
By: Adam on 9/23/2013
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM Sodium D,L-Lactate, 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)
Growth plate: extra_min5 F5,F6
Specific Phenotypes
For 5 genes in this experiment
For stress Polymyxin B sulfate in Pseudomonas stutzeri RCH2
For stress Polymyxin B sulfate across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Malonate decarboxylase | 2 |
| Bacterial hemoglobins | 1 |
| DNA repair, bacterial | 1 |
| Glycolate, glyoxylate interconversions | 1 |
| Photorespiration (oxidative C2 cycle) | 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 |
|---|---|---|---|
| malonate degradation I (biotin-independent) | 3 | 3 | 2 |
| glycolate and glyoxylate degradation II | 2 | 2 | 1 |
| fatty acid biosynthesis initiation (type II) | 3 | 3 | 1 |
| glycolate and glyoxylate degradation III | 3 | 1 | 1 |
| glycolate and glyoxylate degradation I | 4 | 3 | 1 |
| fatty acid biosynthesis initiation (mitochondria) | 4 | 2 | 1 |
| fatty acid biosynthesis initiation (plant mitochondria) | 4 | 1 | 1 |
| superpathway of fatty acid biosynthesis initiation | 5 | 4 | 1 |
| superpathway of glycol metabolism and degradation | 7 | 5 | 1 |
| pederin biosynthesis | 14 | 2 | 2 |
| photorespiration III | 9 | 6 | 1 |
| photorespiration I | 9 | 6 | 1 |
| bryostatin biosynthesis | 19 | 2 | 2 |
| photorespiration II | 10 | 6 | 1 |
| mycobactin biosynthesis | 11 | 1 | 1 |
| superpathway of fatty acid biosynthesis I (E. coli) | 16 | 15 | 1 |
| mupirocin biosynthesis | 26 | 2 | 1 |
| corallopyronin A biosynthesis | 30 | 2 | 1 |
| superpathway of fatty acid biosynthesis II (plant) | 43 | 38 | 1 |
| superpathway of fatty acids biosynthesis (E. coli) | 53 | 51 | 1 |