Experiment set6IT050 for Pseudomonas fluorescens SBW25-INTG
Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs
Group: soilMedia: + Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs
Culturing: PseudoSBW25_INTG_ML3, at 21 (C)
By: Joshua Elmore on 13-Feb-20
Specific Phenotypes
For 20 genes in this experiment
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Widespread colonization island | 5 |
| HMG CoA Synthesis | 1 |
| Leucine Degradation and HMG-CoA Metabolism | 1 |
| Protein secretion by ABC-type exporters | 1 |
| Type IV pilus | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Synthesis and degradation of ketone bodies
- Ubiquinone and menaquinone biosynthesis
- Valine, leucine and isoleucine degradation
- Histidine metabolism
- Tyrosine metabolism
- Tryptophan metabolism
- Benzoxazinone biosynthesis
- Peptidoglycan biosynthesis
- Naphthalene and anthracene degradation
- Butanoate metabolism
- Porphyrin and chlorophyll metabolism
- Carotenoid biosynthesis - General
- Phenylpropanoid biosynthesis
- Flavonoid biosynthesis
- Anthocyanin biosynthesis
- Alkaloid biosynthesis I
- Insect hormone biosynthesis
- Biosynthesis of alkaloids derived from shikimate pathway
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| di-trans,poly-cis-undecaprenyl phosphate biosynthesis | 2 | 2 | 1 |
| mevalonate degradation | 2 | 1 | 1 |
| polyisoprenoid biosynthesis (E. coli) | 5 | 5 | 1 |
| ketogenesis | 5 | 3 | 1 |
| L-leucine degradation I | 6 | 5 | 1 |
| cis-geranyl-CoA degradation | 9 | 4 | 1 |