Experiment set27IT067 for Pseudomonas putida KT2440

L-Isoleucine nitrogen source

Group: nitrogen source
Media: MOPS minimal media_Glucose_noNitrogen + L-Isoleucine (10 mM)
Culturing: Putida_ML5_JBEI, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=200 rpm
By: Mitchell Thompson on 11/8/20
Media components: 10 mM D-Glucose, 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 1.32 mM Potassium phosphate dibasic, 0.01 mM Iron (II) sulfate heptahydrate, 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 10 genes in this experiment

For nitrogen source L-Isoleucine in Pseudomonas putida KT2440

For nitrogen source L-Isoleucine across organisms

SEED Subsystems

Subsystem	#Specific
Isoleucine degradation	5
Valine degradation	5
Leucine Degradation and HMG-CoA Metabolism	3
Acetyl-CoA fermentation to Butyrate	1
Anaerobic respiratory reductases	1
Butanol Biosynthesis	1
Isobutyryl-CoA to Propionyl-CoA Module	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Valine, leucine and isoleucine degradation
• Fatty acid metabolism
• Glycolysis / Gluconeogenesis
• Geraniol degradation
• Pyruvate metabolism
• 1- and 2-Methylnaphthalene degradation
• Benzoate degradation via CoA ligation
• Propanoate metabolism
• Butanoate metabolism
• Reductive carboxylate cycle (CO2 fixation)
• Brassinosteroid biosynthesis
• Caprolactam degradation
• Biosynthesis of terpenoids and steroids
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
acetate and ATP formation from acetyl-CoA III	1	1	1
acetate conversion to acetyl-CoA	1	1	1
2-oxoisovalerate decarboxylation to isobutanoyl-CoA	3	3	2
superpathway of acetate utilization and formation	3	3	1
ethanol degradation II	3	3	1
ethanol degradation IV	3	3	1
ethanol degradation III	3	2	1
L-isoleucine biosynthesis V	3	2	1
chitin deacetylation	4	2	1
pyruvate fermentation to butanol II (engineered)	6	4	1
superpathway of bitter acids biosynthesis	18	3	3
adlupulone and adhumulone biosynthesis	6	1	1
lupulone and humulone biosynthesis	6	1	1
colupulone and cohumulone biosynthesis	6	1	1
reductive glycine pathway of autotrophic CO2 fixation	9	5	1
cis-geranyl-CoA degradation	9	2	1
pyruvate fermentation to hexanol (engineered)	11	8	1
1-butanol autotrophic biosynthesis (engineered)	27	19	1