Experiment set4IT019 for Pseudomonas fluorescens SBW25-INTG
L-Arabinose carbon source; with MOPS
Group: carbon sourceMedia: soilextract_PNNL_Prosser_PlotA_B_20191220 + L-Arabinose (12 mM) + Ammonium chloride (10 mM) + 3-(N-morpholino)propanesulfonic acid (40 mM), pH=7
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 14 genes in this experiment
For carbon source L-Arabinose in Pseudomonas fluorescens SBW25-INTG
For carbon source L-Arabinose across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Ascorbate and aldarate metabolism
- Puromycin biosynthesis
- Nucleotide sugars metabolism
- Glycolysis / Gluconeogenesis
- Fructose and mannose metabolism
- Galactose metabolism
- Valine, leucine and isoleucine biosynthesis
- Starch and sucrose metabolism
- Aminosugars metabolism
- Lipopolysaccharide biosynthesis
- alpha-Linolenic acid metabolism
- Trinitrotoluene degradation
- Pantothenate and CoA biosynthesis
- Porphyrin and chlorophyll metabolism
- Carotenoid biosynthesis - General
- Alkaloid biosynthesis I
- Insect hormone biosynthesis
- Biosynthesis of alkaloids derived from histidine and purine
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-arabinose degradation III | 6 | 5 | 2 |
| L-lyxonate degradation | 3 | 2 | 1 |
| queuosine biosynthesis I (de novo) | 4 | 4 | 1 |
| L-valine biosynthesis | 4 | 4 | 1 |
| pyruvate fermentation to isobutanol (engineered) | 5 | 4 | 1 |
| queuosine biosynthesis III (queuosine salvage) | 5 | 3 | 1 |
| L-isoleucine biosynthesis IV | 6 | 4 | 1 |
| L-arabinose degradation V | 6 | 3 | 1 |
| L-isoleucine biosynthesis I (from threonine) | 7 | 7 | 1 |
| L-isoleucine biosynthesis III | 7 | 4 | 1 |
| L-isoleucine biosynthesis II | 8 | 5 | 1 |
| L-arabinose degradation IV | 8 | 5 | 1 |
| superpathway of branched chain amino acid biosynthesis | 17 | 17 | 2 |
| superpathway of L-isoleucine biosynthesis I | 13 | 13 | 1 |
| superpathway of L-threonine metabolism | 18 | 11 | 1 |
| superpathway of pentose and pentitol degradation | 42 | 16 | 2 |