Experiment set7IT008 for Pseudomonas syringae pv. syringae B728a
4-Aminobutyric acid carbon source
Group: carbon sourceMedia: M9 minimal media_noCarbon + 4-Aminobutyric acid (38.7897595 mM)
Culturing: SyringaeB728a_ML2, 24 well microplate, Aerobic, at 28 (C), shaken=250 rpm
By: Tyler Helmann on 10/29/18
Media components: 2 mM Magnesium sulfate, 0.1 mM Calcium chloride, 12.8 g/L Sodium phosphate dibasic heptahydrate, 3 g/L Potassium phosphate monobasic, 0.5 g/L Sodium Chloride, 1 g/L Ammonium chloride
Specific Phenotypes
For 5 genes in this experiment
For carbon source 4-Aminobutyric acid in Pseudomonas syringae pv. syringae B728a
For carbon source 4-Aminobutyric acid across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Cobalt-zinc-cadmium resistance | 1 |
| Lysine degradation | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Glutamate metabolism
- Lysine degradation
- Butanoate metabolism
- Urea cycle and metabolism of amino groups
- Puromycin biosynthesis
- Alanine and aspartate metabolism
- Geraniol degradation
- Lysine biosynthesis
- Arginine and proline metabolism
- Tyrosine metabolism
- Tryptophan metabolism
- beta-Alanine metabolism
- Nucleotide sugars metabolism
- alpha-Linolenic acid metabolism
- 1- and 2-Methylnaphthalene degradation
- Naphthalene and anthracene degradation
- Trinitrotoluene degradation
- Propanoate metabolism
- Porphyrin and chlorophyll metabolism
- Limonene and pinene degradation
- Carotenoid biosynthesis - General
- Alkaloid biosynthesis I
- Insect hormone biosynthesis
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| 4-aminobutanoate degradation III | 2 | 2 | 2 |
| 4-aminobutanoate degradation I | 2 | 2 | 1 |
| 4-aminobutanoate degradation II | 2 | 1 | 1 |
| L-lysine degradation IV | 5 | 5 | 2 |
| L-lysine degradation X | 6 | 4 | 2 |
| superpathway of 4-aminobutanoate degradation | 3 | 2 | 1 |
| L-lysine degradation III | 6 | 2 | 2 |
| L-lysine degradation I | 7 | 3 | 2 |
| GABA shunt I | 4 | 2 | 1 |
| GABA shunt II | 4 | 2 | 1 |
| putrescine degradation II | 4 | 1 | 1 |
| superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation | 11 | 5 | 2 |
| superpathway of L-arginine and L-ornithine degradation | 13 | 7 | 2 |
| 4-aminobutanoate degradation V | 7 | 2 | 1 |
| superpathway of ornithine degradation | 8 | 4 | 1 |
| nicotine degradation I (pyridine pathway) | 17 | 5 | 1 |
| superpathway of L-lysine degradation | 43 | 17 | 2 |