Experiment set12IT009 for Pseudomonas putida KT2440

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1,4-Butanediol carbon source

Group: carbon source
Media: MOPS minimal media_noCarbon + 1,4-Butanediol (10 mM) + Dimethyl Sulfoxide (1 vol%)
Culturing: Putida_ML5_JBEI, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=700rpm
By: Matthew Incha on 12-Feb-19
Media components: 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 1.32 mM Potassium phosphate dibasic, 0.01 mM Iron (II) sulfate heptahydrate, 9.5 mM Ammonium chloride, 0.276 mM Aluminum potassium sulfate dodecahydrate, 0.0005 mM Calcium chloride, 0.525 mM Magnesium chloride hexahydrate, 50 mM Sodium Chloride, 3e-09 M Ammonium heptamolybdate tetrahydrate, 4e-07 M Boric Acid, 3e-08 M Cobalt chloride hexahydrate, 1e-08 M Copper (II) sulfate pentahydrate, 8e-08 M Manganese (II) chloride tetrahydrate, 1e-08 M Zinc sulfate heptahydrate

Specific Phenotypes

For 12 genes in this experiment

For carbon source 1,4-Butanediol in Pseudomonas putida KT2440

For carbon source 1,4-Butanediol across organisms

SEED Subsystems

Subsystem #Specific
Multidrug Resistance, Tripartite Systems Found in Gram Negative Bacteria 3
Fermentations: Mixed acid 1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria 1
Glycogen metabolism 1
Glycolysis and Gluconeogenesis 1
Glycolysis and Gluconeogenesis, including Archaeal enzymes 1
Polyamine Metabolism 1
Purine conversions 1
Pyruvate metabolism I: anaplerotic reactions, PEP 1
Universal stress protein family 1

Metabolic Maps

Color code by fitness: see overview map or list of maps.

Maps containing gene(s) with specific phenotypes:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
acetaldehyde biosynthesis I 1 1 1
adenosine nucleotides degradation III 1 1 1
pyruvate fermentation to ethanol II 2 1 1
ethanol degradation I 2 1 1
ethanol degradation II 3 3 1
L-valine degradation II 3 2 1
L-leucine degradation III 3 2 1
L-isoleucine degradation II 3 2 1
pyruvate fermentation to ethanol I 3 1 1
L-methionine degradation III 3 1 1
pyruvate fermentation to ethanol III 3 1 1
glycogen biosynthesis I (from ADP-D-Glucose) 4 3 1
salidroside biosynthesis 4 3 1
phytol degradation 4 3 1
L-phenylalanine degradation III 4 2 1
L-tyrosine degradation III 4 2 1
cytidine-5'-diphosphate-glycerol biosynthesis 4 1 1
ethanolamine utilization 5 4 1
pyruvate fermentation to isobutanol (engineered) 5 4 1
acetylene degradation (anaerobic) 5 3 1
phenylethanol biosynthesis 5 3 1
(S)-propane-1,2-diol degradation 5 2 1
noradrenaline and adrenaline degradation 13 8 2
3-methylbutanol biosynthesis (engineered) 7 6 1
serotonin degradation 7 4 1
butanol and isobutanol biosynthesis (engineered) 8 3 1
superpathway of fermentation (Chlamydomonas reinhardtii) 9 4 1
hexitol fermentation to lactate, formate, ethanol and acetate 19 14 2
superpathway of anaerobic sucrose degradation 19 13 2
glycolysis V (Pyrococcus) 10 7 1
starch biosynthesis 10 5 1
glycolysis II (from fructose 6-phosphate) 11 9 1
superpathway of N-acetylneuraminate degradation 22 12 2
gluconeogenesis I 13 11 1
glycolysis I (from glucose 6-phosphate) 13 10 1
superpathway of Clostridium acetobutylicum solventogenic fermentation 13 4 1
L-tryptophan degradation V (side chain pathway) 13 1 1
mixed acid fermentation 16 12 1
superpathway of glycolysis and the Entner-Doudoroff pathway 17 14 1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation 17 6 1
superpathway of hexitol degradation (bacteria) 18 13 1
heterolactic fermentation 18 12 1
gluconeogenesis II (Methanobacterium thermoautotrophicum) 18 9 1
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass 26 22 1
Methanobacterium thermoautotrophicum biosynthetic metabolism 56 21 1