Experiment set40IT081 for Pseudomonas putida KT2440
P. putida South MOI 1
Group: phageMedia: LB_plus_SM_buffer + Kan (50 ug/ml)
Culturing: Putida_ML5, 48 well microplate; Epoch2, Aerobic, at 30 (C), shaken=double orbital, continuous, 205cpm
By: Vivek on 1/12/23
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride, 100 mM Sodium Chloride, 4 mM Magnesium sulfate, 0.005 vol% Gelatin, 25 mM Tris hydrochloride
Specific Phenotypes
For 33 genes in this experiment
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Lipopolysaccharide biosynthesis
- Ubiquinone and menaquinone biosynthesis
- Glycine, serine and threonine metabolism
- Benzoxazinone biosynthesis
- Porphyrin and chlorophyll metabolism
- Carotenoid biosynthesis - General
- Flavonoid biosynthesis
- Anthocyanin biosynthesis
- Fructose and mannose metabolism
- Ascorbate and aldarate metabolism
- Purine metabolism
- Glutamate metabolism
- Histidine metabolism
- Tyrosine metabolism
- Phenylalanine metabolism
- Tryptophan metabolism
- Phenylalanine, tyrosine and tryptophan biosynthesis
- N-Glycan biosynthesis
- O-Glycan biosynthesis
- High-mannose type N-glycan biosynthesis
- O-Mannosyl glycan biosynthesis
- Nucleotide sugars metabolism
- Glycosaminoglycan degradation
- Keratan sulfate biosynthesis
- Peptidoglycan biosynthesis
- Glycerolipid metabolism
- Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
- Sphingolipid metabolism
- Glycosphingolipid biosynthesis - lacto and neolacto series
- Glycosphingolipid biosynthesis - globo series
- Glycosphingolipid biosynthesis - ganglio series
- Naphthalene and anthracene degradation
- Folate biosynthesis
- Diterpenoid biosynthesis
- Zeatin biosynthesis
- Nitrogen metabolism
- Phenylpropanoid biosynthesis
- Flavone and flavonol biosynthesis
- Alkaloid biosynthesis I
- Insect hormone biosynthesis
- Biosynthesis of alkaloids derived from shikimate pathway
- 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-phenylalanine degradation I (aerobic) | 1 | 1 | 1 |
| L-glutamine degradation II | 1 | 1 | 1 |
| L-tyrosine biosynthesis IV | 1 | 1 | 1 |
| ammonia assimilation cycle III | 3 | 3 | 2 |
| glycine betaine biosynthesis I (Gram-negative bacteria) | 2 | 2 | 1 |
| glycine betaine biosynthesis II (Gram-positive bacteria) | 2 | 2 | 1 |
| choline degradation I | 2 | 2 | 1 |
| L-phenylalanine degradation V | 3 | 3 | 1 |
| choline-O-sulfate degradation | 3 | 3 | 1 |
| 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 |
| L-citrulline biosynthesis | 8 | 7 | 1 |
| superpathway of L-citrulline metabolism | 12 | 9 | 1 |