Experiment set14IT001 for Pseudomonas fluorescens SBW25-INTG

Betaine (C)(N); with TAPS; with Sodium chloride

Group: stress
Media: MTM_noNitrogen_noCarbon + Betaine (10 mM) + Betaine (10 mM) + Sodium Chloride (400 mM), pH=8.5
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=1200 rpm
By: Joshua Elmore on September 1, 2021
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM TAPS sodium salt, 4.3 mM Sodium Chloride, 0.41 mM Magnesium Sulfate Heptahydrate, 0.07 mM Calcium chloride dihydrate, MME Trace Minerals (0.5 mg/L EDTA tetrasodium tetrahydrate salt, 2 mg/L Ferric chloride, 0.05 mg/L Boric Acid, 0.05 mg/L Zinc chloride, 0.03 mg/L copper (II) chloride dihydrate, 0.05 mg/L Manganese (II) chloride tetrahydrate, 0.05 mg/L Diammonium molybdate, 0.05 mg/L Cobalt chloride hexahydrate, 0.05 mg/L Nickel (II) chloride hexahydrate)

Specific Phenotypes

For 20 genes in this experiment

For stress Betaine in Pseudomonas fluorescens SBW25-INTG

For stress Betaine across organisms

SEED Subsystems

Subsystem	#Specific
Choline and Betaine Uptake and Betaine Biosynthesis	4
Oxidative stress	2
Phosphate metabolism	2
Acetyl-CoA fermentation to Butyrate	1
Anaerobic respiratory reductases	1
Butanol Biosynthesis	1
Isobutyryl-CoA to Propionyl-CoA Module	1
Isoleucine degradation	1
Lysine degradation	1
Oxygen and light sensor PpaA-PpsR	1
Polyamine Metabolism	1
Proline, 4-hydroxyproline uptake and utilization	1
Pyruvate Alanine Serine Interconversions	1
Valine degradation	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
• Arginine and proline metabolism
• Caprolactam degradation
• Urea cycle and metabolism of amino groups
• Alanine and aspartate metabolism
• Methionine metabolism
• Geraniol degradation
• Lysine biosynthesis
• Lysine degradation
• beta-Alanine metabolism
• Aminophosphonate metabolism
• Nucleotide sugars metabolism
• 1- and 2-Methylnaphthalene degradation
• Benzoate degradation via CoA ligation
• Propanoate metabolism
• Butanoate metabolism
• Nicotinate and nicotinamide metabolism
• Brassinosteroid biosynthesis
• Biosynthesis of terpenoids and steroids
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
putrescine degradation V	2	2	1
β-alanine degradation II	2	2	1
putrescine degradation II	4	1	1
fatty acid salvage	6	6	1
β-alanine biosynthesis II	6	5	1
pyruvate fermentation to butanol II (engineered)	6	4	1
NAD(P)/NADPH interconversion	6	3	1
superpathway of ornithine degradation	8	4	1
superpathway of coenzyme A biosynthesis II (plants)	10	9	1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation	11	7	1
pyruvate fermentation to hexanol (engineered)	11	7	1
superpathway of L-arginine and L-ornithine degradation	13	9	1
1-butanol autotrophic biosynthesis (engineered)	27	19	1
oleate β-oxidation	35	33	1