Experiment set3IT072 for Pseudomonas fluorescens SBW25-INTG
Growth at pH9 and carbon source Trisodium citrate dihydrate
Group: pHMedia: soilextract_PNNL_Prosser_PlotA_B_20191220 + Trisodium citrate dihydrate (10 mM) + Ammonium chloride (10 mM) + AMPSO (40 mM), pH=9
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1 mL volume, Aerobic, at 30 (C)
By: Joshua Elmore on 1/6/20
Specific Phenotypes
For 26 genes in this experiment
For pH Trisodium citrate dihydrate in Pseudomonas fluorescens SBW25-INTG
For pH Trisodium citrate dihydrate across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Fatty acid metabolism
- Valine, leucine and isoleucine degradation
- Porphyrin and chlorophyll metabolism
- Purine metabolism
- Puromycin biosynthesis
- Glutamate metabolism
- Arginine and proline metabolism
- beta-Alanine metabolism
- Nucleotide sugars metabolism
- Lipopolysaccharide biosynthesis
- alpha-Linolenic acid metabolism
- Pyruvate metabolism
- Glyoxylate and dicarboxylate metabolism
- Trinitrotoluene degradation
- Propanoate metabolism
- Butanoate metabolism
- Folate biosynthesis
- Carotenoid biosynthesis - General
- Nitrogen metabolism
- Alkaloid biosynthesis I
- Insect hormone biosynthesis
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-glutamate biosynthesis III | 1 | 1 | 1 |
| methylglyoxal degradation VIII | 3 | 3 | 1 |
| methylglyoxal degradation I | 3 | 2 | 1 |
| polymyxin resistance | 6 | 3 | 2 |
| heme b biosynthesis II (oxygen-independent) | 4 | 3 | 1 |
| adipate degradation | 5 | 5 | 1 |
| fatty acid salvage | 6 | 6 | 1 |
| pyruvate fermentation to butanol II (engineered) | 6 | 4 | 1 |
| superpathway of heme b biosynthesis from uroporphyrinogen-III | 6 | 4 | 1 |
| L-glutamate and L-glutamine biosynthesis | 7 | 6 | 1 |
| 2-methyl-branched fatty acid β-oxidation | 14 | 11 | 2 |
| superpathway of methylglyoxal degradation | 8 | 5 | 1 |
| photorespiration I | 9 | 5 | 1 |
| photorespiration III | 9 | 5 | 1 |
| 3,8-divinyl-chlorophyllide a biosynthesis II (anaerobic) | 9 | 3 | 1 |
| photorespiration II | 10 | 6 | 1 |
| pyruvate fermentation to hexanol (engineered) | 11 | 7 | 1 |
| oleate β-oxidation | 35 | 33 | 3 |
| superpathway of bacteriochlorophyll a biosynthesis | 26 | 5 | 1 |
| 1-butanol autotrophic biosynthesis (engineered) | 27 | 19 | 1 |