Experiment set4IT032 for Rhodospirillum rubrum S1H
L-Malic Acid carbon source with ammonium chloride; high light
Group: anaerboic nitrogen sourceMedia: MELiSSA_defined_noCarbon_noNitrogen_phosphatebuffered + Ammonium chloride (35.33 mM) + L-Malic acid (20 mM), pH=7
Culturing: Rubrum_ML4a, serum bottle, Anaerobic, at 30 (C)
By: Kelly Wetmore; Jordan Baker on 4/22/19
Media components: 0.051 mM Manganese (II) chloride tetrahydrate, 0.0811 mM Magnesium Sulfate Heptahydrate, 3.801 mM Sodium sulfate, 0.34 mM Calcium chloride dihydrate, 0.068 mM EDTA, 3.601 mM Potassium phosphate monobasic, 0.072 mM Iron (II) sulfate heptahydrate, 50 mM Sodium bicarbonate, 2.985 mM Potassium phosphate dibasic, 1.902 uM Nickel (II) sulfate hexahydrate, 0.348 uM Zinc sulfate heptahydrate, 0.02 uM Copper (II) sulfate pentahydrate, 1.623 uM Boric Acid, 0.207 uM Sodium Molybdate Dihydrate, 0.06 uM biotin, 10 mM Potassium phosphate monobasic, 0.597 mM Potassium phosphate dibasic
Specific Phenotypes
For 5 genes in this experiment
For anaerboic nitrogen source Ammonium chloride in Rhodospirillum rubrum S1H
For anaerboic nitrogen source Ammonium chloride across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Capsular heptose biosynthesis | 1 |
| Colanic acid biosynthesis | 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
- N-Glycan biosynthesis
- O-Glycan biosynthesis
- High-mannose type N-glycan biosynthesis
- O-Mannosyl glycan biosynthesis
- Nucleotide sugars metabolism
- Biosynthesis of 12-, 14- and 16-membered macrolides
- Keratan sulfate biosynthesis
- Lipopolysaccharide biosynthesis
- Peptidoglycan biosynthesis
- Glycerolipid metabolism
- Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
- Sphingolipid metabolism
- Glycosphingolipid biosynthesis - lacto and neolacto series
- Glycosphingolipid biosynthesis - globo series
- Glycosphingolipid biosynthesis - ganglio series
- Carotenoid biosynthesis - General
- Zeatin biosynthesis
- Flavonoid biosynthesis
- Anthocyanin biosynthesis
- Flavone and flavonol biosynthesis
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| GDP-D-perosamine biosynthesis | 2 | 1 | 1 |
| GDP-6-deoxy-D-talose biosynthesis | 2 | 1 | 1 |
| GDP-D-rhamnose biosynthesis | 2 | 1 | 1 |
| GDP-L-fucose biosynthesis I (from GDP-D-mannose) | 3 | 3 | 1 |
| GDP-N-acetyl-α-D-perosamine biosynthesis | 3 | 1 | 1 |
| GDP-N-formyl-α-D-perosamine biosynthesis | 3 | 1 | 1 |
| GDP-mycosamine biosynthesis | 3 | 1 | 1 |
| GDP-L-colitose biosynthesis | 5 | 3 | 1 |
| tylosin biosynthesis | 9 | 1 | 1 |
| colanic acid building blocks biosynthesis | 11 | 11 | 1 |
| superpathway of candicidin biosynthesis | 11 | 4 | 1 |
| superpathway of GDP-mannose-derived O-antigen building blocks biosynthesis | 14 | 9 | 1 |