Experiment set27S465 for Pseudomonas fluorescens SBW25-INTG

p-Coumaric acid carbon source

Group: carbon source
Media: MME_noCarbon + p-Coumaric acid (2 mM)
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C)
By: Andrew Frank on 1/31/23
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM 3-(N-morpholino)propanesulfonic acid, 4.3 mM Sodium Chloride, 10 mM Ammonium 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 7 genes in this experiment

For carbon source p-Coumaric acid in Pseudomonas fluorescens SBW25-INTG

For carbon source p-Coumaric acid across organisms

SEED Subsystems

Subsystem	#Specific
Arginine and Ornithine Degradation	2
Acetyl-CoA fermentation to Butyrate	1
Anaerobic respiratory reductases	1
Butanol Biosynthesis	1
Isobutyryl-CoA to Propionyl-CoA Module	1
Isoleucine degradation	1
Queuosine-Archaeosine Biosynthesis	1
Valine degradation	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fatty acid metabolism
• Valine, leucine and isoleucine degradation
• Lysine biosynthesis
• Arginine and proline metabolism
• Urea cycle and metabolism of amino groups
• beta-Alanine metabolism
• Propanoate metabolism
• Butanoate metabolism
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-proline biosynthesis III (from L-ornithine)	3	3	1
L-ornithine biosynthesis II	3	3	1
L-arginine degradation I (arginase pathway)	3	3	1
queuosine biosynthesis I (de novo)	4	4	1
L-arginine degradation VI (arginase 2 pathway)	4	4	1
L-ornithine biosynthesis I	5	5	1
L-arginine degradation XIII (reductive Stickland reaction)	5	5	1
L-arginine degradation II (AST pathway)	5	5	1
pyruvate fermentation to butanol II (engineered)	6	4	1
L-Nδ-acetylornithine biosynthesis	7	6	1
2-methyl-branched fatty acid β-oxidation	14	11	2
L-citrulline biosynthesis	8	8	1
L-lysine biosynthesis I	9	9	1
L-arginine biosynthesis I (via L-ornithine)	9	9	1
L-arginine biosynthesis III (via N-acetyl-L-citrulline)	9	8	1
L-arginine biosynthesis II (acetyl cycle)	10	10	1
pyruvate fermentation to hexanol (engineered)	11	7	1
superpathway of L-citrulline metabolism	12	10	1
superpathway of arginine and polyamine biosynthesis	17	15	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	16	1
aspartate superpathway	25	22	1
1-butanol autotrophic biosynthesis (engineered)	27	19	1