Experiment set7IT021 for Pseudomonas syringae pv. syringae B728a
Citric Acid carbon source
Group: carbon sourceMedia: M9 minimal media_noCarbon + Citric Acid (20.82032063 mM)
Culturing: SyringaeB728a_ML2, 24 well microplate, Aerobic, at 28 (C), shaken=250 rpm
By: Tyler Helmann on 1/6/19
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 19 genes in this experiment
For carbon source Citric Acid in Pseudomonas syringae pv. syringae B728a
For carbon source Citric Acid across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Arginine and Ornithine Degradation | 2 |
| Inositol catabolism | 1 |
| Methionine Biosynthesis | 1 |
| Siderophore Pyoverdine | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Fructose and mannose metabolism
- Fatty acid biosynthesis
- Lysine degradation
- Arginine and proline metabolism
- Histidine metabolism
- Tyrosine metabolism
- Phenylalanine metabolism
- Nucleotide sugars metabolism
- Lipopolysaccharide biosynthesis
- Glycerophospholipid metabolism
- Ether lipid metabolism
- Glycosphingolipid biosynthesis - ganglio series
- 1- and 2-Methylnaphthalene degradation
- Benzoate degradation via CoA ligation
- Ethylbenzene degradation
- Butanoate metabolism
- Limonene and pinene degradation
- Diterpenoid biosynthesis
- Carotenoid biosynthesis - General
- Anthocyanin biosynthesis
- Alkaloid biosynthesis I
- Alkaloid biosynthesis II
- Biosynthesis of unsaturated fatty acids
- Biosynthesis of type II polyketide backbone
- Biosynthesis of terpenoids and steroids
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| GDP-mannose biosynthesis | 4 | 4 | 2 |
| D-mannose degradation I | 2 | 1 | 1 |
| D-mannose degradation II | 2 | 1 | 1 |
| β-1,4-D-mannosyl-N-acetyl-D-glucosamine degradation | 3 | 2 | 1 |
| mannitol biosynthesis | 3 | 1 | 1 |
| mannitol degradation II | 4 | 2 | 1 |
| L-arginine degradation II (AST pathway) | 5 | 5 | 1 |
| 1,5-anhydrofructose degradation | 5 | 2 | 1 |
| colanic acid building blocks biosynthesis | 11 | 9 | 2 |
| superpathway of GDP-mannose-derived O-antigen building blocks biosynthesis | 14 | 7 | 2 |
| β-(1,4)-mannan degradation | 7 | 2 | 1 |