Experiment set1IT094 for Escherichia coli BW25113
casamino acids nitrogen source
Group: nitrogen sourceMedia: M9 minimal media_noNitrogen + casamino acids (2 mg/ml)
Culturing: Keio_ML9, tube, Aerobic, at 37 (C), shaken=200 rpm
Growth: about 6.8 generations
By: Kelly on 6/19/2014
Media components: 4 g/L D-Glucose, 2 mM Magnesium sulfate, 0.1 mM Calcium chloride, 12.8 g/L Sodium phosphate dibasic heptahydrate, 3 g/L Potassium phosphate monobasic, 0.5 g/L Sodium Chloride
Specific Phenotypes
For 5 genes in this experiment
For nitrogen source casamino acids in Escherichia coli BW25113
For nitrogen source casamino acids across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Coenzyme A Biosynthesis | 2 |
| Biotin biosynthesis | 1 |
| Chorismate Synthesis | 1 |
| Common Pathway For Synthesis of Aromatic Compounds (DAHP synthase to chorismate) | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Pantothenate and CoA biosynthesis
- Biosynthesis of alkaloids derived from shikimate pathway
- Fructose and mannose metabolism
- Ascorbate and aldarate metabolism
- C21-Steroid hormone metabolism
- Glycine, serine and threonine metabolism
- Bisphenol A degradation
- Phenylalanine, tyrosine and tryptophan biosynthesis
- Nucleotide sugars metabolism
- Polyketide sugar unit biosynthesis
- Aminosugars metabolism
- Linoleic acid metabolism
- Tetrachloroethene degradation
- Benzoate degradation via CoA ligation
- Butanoate metabolism
- Biotin metabolism
- Retinol metabolism
- Alkaloid biosynthesis I
- Insect hormone biosynthesis
- Biosynthesis of unsaturated fatty acids
- Biosynthesis of type II polyketide products
- Biosynthesis of phenylpropanoids
- Biosynthesis of plant hormones
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| phosphopantothenate biosynthesis I | 4 | 4 | 2 |
| 3-dehydroquinate biosynthesis I | 2 | 2 | 1 |
| phosphopantothenate biosynthesis III (archaea) | 4 | 2 | 2 |
| biotin biosynthesis from 8-amino-7-oxononanoate I | 4 | 4 | 1 |
| superpathway of coenzyme A biosynthesis I (bacteria) | 9 | 9 | 2 |
| superpathway of coenzyme A biosynthesis II (plants) | 10 | 5 | 2 |
| chorismate biosynthesis I | 7 | 7 | 1 |
| superpathway of L-phenylalanine biosynthesis | 10 | 10 | 1 |
| superpathway of L-tyrosine biosynthesis | 10 | 10 | 1 |
| superpathway of L-tryptophan biosynthesis | 13 | 13 | 1 |
| biotin biosynthesis I | 15 | 15 | 1 |
| superpathway of aromatic amino acid biosynthesis | 18 | 18 | 1 |
| superpathway of chorismate metabolism | 59 | 54 | 1 |