Experiment set2S818 for Pseudomonas aeruginosa MRSN321
carbon source 10 mM Sodium butyrate
Group: carbon sourceMedia: Hans_Basal_Media + Sodium butyrate (10 mM), pH=7
Culturing: Paeruginosa_MRSN321_ML2, 96 deep-well block, Aerobic, at 30 (C), shaken=700 rpm
By: Hans and Ryan on 7/7/2025
Media components: 0.03 M PIPES sesquisodium salt, 0.1 g/L Potassium Chloride, 0.01 g/L Sodium Chloride, 0.01 g/L Calcium chloride dihydrate, 0.1 g/L Magnesium chloride hexahydrate, 0.1 g/L Sodium sulfate, 0.25 g/L Ammonium chloride, 0.1 g/L Disodium phosphate, DL vitamins (0.0002 mg/L biotin, 0.0002 mg/L Folic Acid, 0.001 mg/L Pyridoxine HCl, 0.0005 mg/L Riboflavin, 0.0005 mg/L Thiamine HCl, 0.0005 mg/L Nicotinic Acid, 0.0005 mg/L calcium pantothenate, 1e-05 mg/L Cyanocobalamin, 0.0005 mg/L 4-Aminobenzoic acid, 0.0005 mg/L Lipoic acid), Sulfur-free DL minerals (0.0003 g/L Magnesium chloride hexahydrate, 0.00015 g/L Nitrilotriacetic acid disodium salt, 0.0001 g/L Sodium Chloride, 5e-05 g/L Manganese (II) chloride tetrahydrate, 1e-05 g/L Cobalt chloride hexahydrate, 1.3e-05 g/L Zinc chloride, 1e-05 g/L Calcium chloride dihydrate, 1e-05 g/L Iron (II) chloride tetrahydrate, 2.5e-06 g/L Nickel (II) chloride hexahydrate, 2e-06 g/L Aluminum chloride hydrate, 1e-06 g/L copper (II) chloride dihydrate, 1e-06 g/L Boric Acid, 1e-06 g/L Sodium Molybdate Dihydrate, 3e-05 g/L Sodium selenite pentahydrate, 2.5e-05 g/L Sodium tungstate dihydrate)
Specific Phenotypes
For 14 genes in this experiment
For carbon source Sodium butyrate in Pseudomonas aeruginosa MRSN321
For carbon source Sodium butyrate across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Multidrug Resistance, Tripartite Systems Found in Gram Negative Bacteria | 3 |
| Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate | 2 |
| Cobalt-zinc-cadmium resistance | 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
- Geraniol degradation
- Tyrosine metabolism
- N-Glycan biosynthesis
- O-Glycan biosynthesis
- High-mannose type N-glycan biosynthesis
- O-Mannosyl glycan biosynthesis
- Keratan sulfate biosynthesis
- Lipopolysaccharide biosynthesis
- Peptidoglycan biosynthesis
- Glycerolipid metabolism
- Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
- alpha-Linolenic acid metabolism
- Sphingolipid metabolism
- Glycosphingolipid biosynthesis - lacto and neolacto series
- Glycosphingolipid biosynthesis - globo series
- Glycosphingolipid biosynthesis - ganglio series
- Benzoate degradation via CoA ligation
- Propanoate metabolism
- Ethylbenzene degradation
- Limonene and pinene degradation
- Carotenoid biosynthesis - General
- Zeatin biosynthesis
- Caprolactam degradation
- Flavonoid biosynthesis
- Anthocyanin biosynthesis
- Flavone and flavonol biosynthesis
- Alkaloid biosynthesis II
- Biosynthesis of plant hormones
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| cinnamoyl-CoA biosynthesis | 2 | 1 | 1 |
| umbelliferone biosynthesis | 3 | 2 | 1 |
| naringenin biosynthesis (engineered) | 4 | 1 | 1 |
| xanthohumol biosynthesis | 4 | 1 | 1 |
| 4-hydroxybenzoate biosynthesis III (plants) | 5 | 4 | 1 |
| benzoate biosynthesis III (CoA-dependent, non-β-oxidative) | 5 | 3 | 1 |
| 4-coumarate degradation (aerobic) | 5 | 2 | 1 |
| chlorogenic acid biosynthesis II | 5 | 1 | 1 |
| phaselate biosynthesis | 5 | 1 | 1 |
| flavonoid biosynthesis | 5 | 1 | 1 |
| 6-gingerol analog biosynthesis (engineered) | 6 | 3 | 1 |
| 4-coumarate degradation (anaerobic) | 6 | 1 | 1 |
| chlorogenic acid biosynthesis I | 8 | 1 | 1 |
| benzoate biosynthesis I (CoA-dependent, β-oxidative) | 9 | 4 | 1 |
| avenanthramide biosynthesis | 9 | 1 | 1 |
| 5,6-dehydrokavain biosynthesis (engineered) | 10 | 7 | 1 |
| rosmarinic acid biosynthesis I | 10 | 2 | 1 |
| curcuminoid biosynthesis | 10 | 1 | 1 |
| coumarins biosynthesis (engineered) | 13 | 5 | 1 |
| superpathway of rosmarinic acid biosynthesis | 14 | 2 | 1 |
| flavonoid di-C-glucosylation | 15 | 3 | 1 |
| monolignol biosynthesis | 15 | 1 | 1 |