Experiment set29IT039 for Pseudomonas putida KT2440

2,3-Butanediol carbon source

Group: carbon source
Media: MOPS minimal media_noCarbon + 2,3-Butanediol (10 mM)
Culturing: Putida_ML5_JBEI, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=200 rpm
By: Matthias Schmidt on 4/13/21
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 7 genes in this experiment

For carbon source 2,3-Butanediol in Pseudomonas putida KT2440

For carbon source 2,3-Butanediol across organisms

SEED Subsystems

Subsystem	#Specific
Acetoin, butanediol metabolism	4
Ketoisovalerate oxidoreductase	1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate	1
Thiamin biosynthesis	1
Type IV pilus	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Glycolysis / Gluconeogenesis
• Pyruvate metabolism
• Biosynthesis of terpenoids and steroids
• Citrate cycle (TCA cycle)
• Lysine degradation
• Butanoate metabolism
• Biosynthesis of phenylpropanoids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of alkaloids derived from terpenoid and polyketide
• Biosynthesis of plant hormones
• Fatty acid biosynthesis
• Valine, leucine and isoleucine biosynthesis
• Histidine metabolism
• Tyrosine metabolism
• Phenylalanine metabolism
• Lipopolysaccharide biosynthesis
• Glycerophospholipid metabolism
• Ether lipid metabolism
• Glycosphingolipid biosynthesis - ganglio series
• 1- and 2-Methylnaphthalene degradation
• Benzoate degradation via CoA ligation
• Propanoate metabolism
• Ethylbenzene degradation
• Reductive carboxylate cycle (CO2 fixation)
• Thiamine metabolism
• Limonene and pinene degradation
• Diterpenoid biosynthesis
• Carotenoid biosynthesis - General
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Alkaloid biosynthesis II
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide backbone

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
glyphosate degradation II	1	1	1
acetate conversion to acetyl-CoA	1	1	1
acetate and ATP formation from acetyl-CoA III	1	1	1
pyruvate decarboxylation to acetyl CoA I	3	3	2
superpathway of acetate utilization and formation	3	3	1
ethanol degradation II	3	3	1
ethanol degradation IV	3	3	1
L-isoleucine biosynthesis V	3	2	1
ethanol degradation III	3	2	1
chitin deacetylation	4	2	1
2-methylcitrate cycle I	5	5	1
β-alanine biosynthesis II	6	5	1
2-methylcitrate cycle II	6	5	1
L-isoleucine biosynthesis IV	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
thiazole component of thiamine diphosphate biosynthesis II	7	4	1
butanol and isobutanol biosynthesis (engineered)	8	3	1
reductive glycine pathway of autotrophic CO2 fixation	9	5	1
cis-geranyl-CoA degradation	9	2	1
superpathway of coenzyme A biosynthesis II (plants)	10	9	1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	18	2
superpathway of thiamine diphosphate biosynthesis II	11	8	1