Experiment set22IT075 for Pseudomonas putida KT2440
Temperature shift 30_to_4
Group: temperature shiftMedia: soilextract_PNNL_Prosser_PlotA_B_20191220 + D-Glucose (10 mM) + Ammonium chloride (10 mM)
Culturing: Putida_ML5_PNNL, tube, Aerobic, at 30_to_4 (C)
By: Joshua Elmore on 1/6/20
Specific Phenotypes
For 5 genes in this experiment
For temperature shift D-Glucose in Pseudomonas putida KT2440
For temperature shift D-Glucose across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Ammonia assimilation | 1 |
| Branched-Chain Amino Acid Biosynthesis | 1 |
| Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Glutamate metabolism
- Glycine, serine and threonine metabolism
- Valine, leucine and isoleucine biosynthesis
- Nitrogen metabolism
- 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 I | 2 | 2 | 2 |
| L-glutamine degradation I | 1 | 1 | 1 |
| L-glutamine degradation II | 1 | 1 | 1 |
| L-methionine degradation II | 3 | 3 | 2 |
| ammonia assimilation cycle III | 3 | 3 | 2 |
| L-threonine degradation I | 6 | 4 | 3 |
| L-threonine degradation V | 2 | 1 | 1 |
| L-isoleucine biosynthesis I (from threonine) | 7 | 7 | 3 |
| L-glutamate and L-glutamine biosynthesis | 7 | 6 | 2 |
| L-asparagine biosynthesis III (tRNA-dependent) | 4 | 4 | 1 |
| glutaminyl-tRNAgln biosynthesis via transamidation | 4 | 3 | 1 |
| superpathway of L-isoleucine biosynthesis I | 13 | 13 | 3 |
| hypoglycin biosynthesis | 14 | 4 | 3 |
| superpathway of branched chain amino acid biosynthesis | 17 | 17 | 3 |
| superpathway of L-threonine metabolism | 18 | 12 | 3 |
| L-citrulline biosynthesis | 8 | 7 | 1 |
| superpathway of L-citrulline metabolism | 12 | 9 | 1 |
| cyclosporin A biosynthesis | 15 | 2 | 1 |