Experiment set15IT056 for Pseudomonas putida KT2440

4-Methyl-2-oxopentanoic acid carbon source

Group: carbon source
Media: MOPS minimal media_noCarbon + 4-Methyl-2-oxovaleric acid (10 mM)
Culturing: Putida_ML5_JBEI, tube, Aerobic, at 30 (C), shaken=200 rpm
By: Mitchell Thompson on 10/22/19
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 9 genes in this experiment

For carbon source 4-Methyl-2-oxovaleric acid in Pseudomonas putida KT2440

For carbon source 4-Methyl-2-oxovaleric acid across organisms

SEED Subsystems

Subsystem	#Specific
Leucine Degradation and HMG-CoA Metabolism	6
Isoleucine degradation	4
Valine degradation	4
Serine-glyoxylate cycle	3
Catechol branch of beta-ketoadipate pathway	2
Protocatechuate branch of beta-ketoadipate pathway	2
HMG CoA Synthesis	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
• Synthesis and degradation of ketone bodies
• Geraniol degradation
• 1- and 2-Methylnaphthalene degradation
• Butanoate metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
2-oxoisovalerate decarboxylation to isobutanoyl-CoA	3	3	2
ketolysis	3	3	1
L-leucine degradation I	6	5	2
TCA cycle VI (Helicobacter)	9	7	1