Experiment set4IT073 for Pseudomonas simiae WCS417
LB with Paraquat dichloride 0.008 mg/ml
Group: stressMedia: LB + Paraquat dichloride (0.008 mg/ml)
Culturing: fluoroDangl_ML3, 48 well microplate; Tecan Infinite F200, Aerobic, at 25 (C), shaken=orbital
By: Mark on 3/1/2015
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 1161 B3,B4
Specific Phenotypes
For 15 genes in this experiment
For stress Paraquat dichloride in Pseudomonas simiae WCS417
For stress Paraquat dichloride 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
- Urea cycle and metabolism of amino groups
- Geraniol degradation
- Lysine biosynthesis
- Lysine degradation
- Arginine and proline metabolism
- Tryptophan metabolism
- 1- and 2-Methylnaphthalene degradation
- Naphthalene and anthracene degradation
- Limonene and pinene degradation
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| glycine betaine biosynthesis II (Gram-positive bacteria) | 2 | 2 | 2 |
| choline degradation I | 2 | 2 | 2 |
| glycine betaine biosynthesis I (Gram-negative bacteria) | 2 | 2 | 2 |
| choline-O-sulfate degradation | 3 | 3 | 2 |
| 4-aminobutanoate degradation III | 2 | 2 | 1 |
| β-alanine biosynthesis IV | 2 | 1 | 1 |
| β-alanine biosynthesis I | 2 | 1 | 1 |
| glycine betaine biosynthesis III (plants) | 3 | 2 | 1 |
| dimethylsulfoniopropanoate biosynthesis I (Wollastonia) | 3 | 1 | 1 |
| choline degradation IV | 4 | 2 | 1 |
| dimethylsulfoniopropanoate biosynthesis II (Spartina) | 4 | 1 | 1 |
| L-lysine degradation IV | 5 | 5 | 1 |
| L-lysine degradation X | 6 | 5 | 1 |
| L-lysine degradation III | 6 | 2 | 1 |
| L-lysine degradation I | 7 | 4 | 1 |
| superpathway of L-lysine degradation | 43 | 17 | 1 |