Experiment set39IT037 for Pseudomonas putida KT2440

MOPS minimal media_Glucose20mM with Sodium Fluoroacetate 80 mM

Group: stress
Media: MOPS minimal media_Glucose20mM + Sodium Fluoroacetate (80 mM)
Culturing: Putida_ML5_JBEI, 24-well plate, Aerobic, at 30 (C), shaken=200 rpm
By: Allie Pearson on 28-Sep
Media components: 20 mM D-Glucose, 9.5 mM Ammonium chloride, 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 23 genes in this experiment

For stress Sodium Fluoroacetate in Pseudomonas putida KT2440

For stress Sodium Fluoroacetate across organisms

SEED Subsystems

Subsystem	#Specific
Fructose utilization	2
Coenzyme PQQ synthesis	1
D-gluconate and ketogluconates metabolism	1
DNA-replication	1
Entner-Doudoroff Pathway	1
Fructose and Mannose Inducible PTS	1
Ketoisovalerate oxidoreductase	1
Mannitol Utilization	1
Pyrroloquinoline Quinone biosynthesis	1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate	1
Respiratory dehydrogenases 1	1
Serine-glyoxylate cycle	1
Sialic Acid Metabolism	1
cAMP signaling in bacteria	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Glycolysis / Gluconeogenesis
• Nucleotide sugars metabolism
• Aminosugars metabolism
• Pyruvate metabolism
• 1- and 2-Methylnaphthalene degradation
• Pentose phosphate pathway
• Fructose and mannose metabolism
• Galactose metabolism
• Ascorbate and aldarate metabolism
• Purine metabolism
• Pyrimidine metabolism
• Geraniol degradation
• gamma-Hexachlorocyclohexane degradation
• Bisphenol A degradation
• Starch and sucrose metabolism
• Naphthalene and anthracene degradation
• Benzoate degradation via CoA ligation
• Propanoate metabolism
• Ethylbenzene degradation
• Reductive carboxylate cycle (CO2 fixation)
• Retinol metabolism
• Limonene and pinene degradation

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
acetate conversion to acetyl-CoA	1	1	1
acetate and ATP formation from acetyl-CoA III	1	1	1
acetate formation from acetyl-CoA (succinate)	1	1	1
ethanol degradation II	3	3	1
ethanol degradation IV	3	3	1
pyruvate fermentation to acetate V	3	3	1
superpathway of acetate utilization and formation	3	3	1
pyruvate fermentation to acetate VI	3	2	1
L-isoleucine biosynthesis V	3	2	1
ethanol degradation III	3	2	1
N-acetylneuraminate and N-acetylmannosamine degradation II	3	1	1
chitin deacetylation	4	2	1
sulfoquinovose degradation III	4	2	1
2-methylcitrate cycle I	5	5	1
glucose degradation (oxidative)	5	5	1
glucose and glucose-1-phosphate degradation	5	4	1
sulfoquinovose degradation VI	5	2	1
sulfoquinovose degradation I	5	1	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
lupulone and humulone biosynthesis	6	1	1
colupulone and cohumulone biosynthesis	6	1	1
adlupulone and adhumulone biosynthesis	6	1	1
L-ascorbate biosynthesis VIII (engineered pathway)	7	5	1
sulfoquinovose degradation V	7	1	1
succinate fermentation to butanoate	7	1	1
TCA cycle VII (acetate-producers)	9	8	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
anaerobic energy metabolism (invertebrates, mitochondrial)	10	5	1
superpathway of anaerobic energy metabolism (invertebrates)	17	10	1