Experiment set16IT019 for Pseudomonas fluorescens SBW25-INTG

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p-Coumaric acid (C) and Ammonium chloride (N); with MOPS

Group: no stress control
Media: MME_noNitrogen_noCarbon + p-Coumaric acid (5 mM) + Ammonium chloride (10 mM), pH=7
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 8 (C), shaken=1200 rpm
By: Joshua Elmore on September 1, 2021
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM 3-(N-morpholino)propanesulfonic acid, 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 45 genes in this experiment

For no stress control p-Coumaric acid in Pseudomonas fluorescens SBW25-INTG

For no stress control p-Coumaric acid across organisms

SEED Subsystems

Subsystem #Specific
ABC transporter oligopeptide (TC 3.A.1.5.1) 6
Orphan regulatory proteins 2
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate 2
ABC transporter dipeptide (TC 3.A.1.5.2) 1
Coenzyme A Biosynthesis 1
DNA repair, bacterial MutL-MutS system 1
Entner-Doudoroff Pathway 1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria 1
Glycine cleavage system 1
Lipid A modifications 1
Methylglyoxal Metabolism 1
Multidrug Resistance, Tripartite Systems Found in Gram Negative Bacteria 1
Pyruvate Alanine Serine Interconversions 1
Queuosine-Archaeosine Biosynthesis 1
Rubrerythrin 1
Ubiquinone Biosynthesis 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:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
thiosulfate disproportionation IV (rhodanese) 1 1 1
UDP-α-D-glucuronate biosynthesis (from UDP-glucose) 1 1 1
putrescine degradation V 2 2 1
β-alanine degradation II 2 2 1
phenylethylamine degradation I 2 2 1
UDP-α-D-xylose biosynthesis 2 1 1
putrescine degradation I 2 1 1
ethylene glycol degradation 2 1 1
phenylethylamine degradation II 2 1 1
phenylethanol degradation 2 1 1
L-cysteine degradation III 2 1 1
ethanol degradation II 3 3 1
ethanol degradation IV 3 3 1
ethanol degradation III 3 2 1
urate conversion to allantoin I 3 2 1
hypotaurine degradation 3 2 1
L-phenylalanine degradation II (anaerobic) 3 2 1
putrescine degradation IV 3 2 1
polymyxin resistance 6 3 2
styrene degradation 3 1 1
histamine degradation 3 1 1
phosphopantothenate biosynthesis I 4 4 1
putrescine degradation III 4 3 1
phytol degradation 4 3 1
L-tryptophan degradation X (mammalian, via tryptamine) 4 2 1
phosphopantothenate biosynthesis III (archaea) 4 2 1
D-arabinose degradation II 4 2 1
fatty acid α-oxidation I (plants) 4 2 1
superpathway of coenzyme A biosynthesis II (plants) 10 9 2
octane oxidation 5 4 1
mitochondrial NADPH production (yeast) 5 4 1
sphingosine and sphingosine-1-phosphate metabolism 10 4 2
dopamine degradation 5 2 1
sulfide oxidation IV (mitochondria) 5 2 1
L-leucine degradation I 6 5 1
β-alanine biosynthesis II 6 5 1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis 6 4 1
3-methyl-branched fatty acid α-oxidation 6 3 1
alkane oxidation 6 1 1
noradrenaline and adrenaline degradation 13 8 2
ureide biosynthesis 7 6 1
superpathway of glycol metabolism and degradation 7 5 1
serotonin degradation 7 4 1
ceramide degradation by α-oxidation 7 2 1
limonene degradation IV (anaerobic) 7 1 1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) 8 7 1
ubiquinol-8 biosynthesis (early decarboxylation) 8 6 1
superpathway of ornithine degradation 8 4 1
aromatic biogenic amine degradation (bacteria) 8 4 1
ubiquinol-6 biosynthesis (late decarboxylation) 8 3 1
ubiquinol-9 biosynthesis (late decarboxylation) 8 3 1
ubiquinol-9 biosynthesis (early decarboxylation) 8 3 1
ceramide and sphingolipid recycling and degradation (yeast) 16 4 2
ubiquinol-7 biosynthesis (early decarboxylation) 8 2 1
ubiquinol-10 biosynthesis (early decarboxylation) 8 2 1
ubiquinol-7 biosynthesis (late decarboxylation) 8 2 1
superpathway of coenzyme A biosynthesis I (bacteria) 9 8 1
Entner-Doudoroff pathway II (non-phosphorylative) 9 6 1
L-phenylalanine degradation IV (mammalian, via side chain) 9 5 1
ubiquinol-8 biosynthesis (late decarboxylation) 9 4 1
ubiquinol-6 biosynthesis from 4-aminobenzoate (yeast) 9 3 1
UDP-sugars interconversion 9 2 1
ubiquinol-10 biosynthesis (late decarboxylation) 9 2 1
teichuronic acid biosynthesis (B. subtilis 168) 9 2 1
methyl tert-butyl ether degradation 10 4 1
colanic acid building blocks biosynthesis 11 11 1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation 11 7 1
superpathway of phenylethylamine degradation 11 6 1
superpathway of ubiquinol-6 biosynthesis (late decarboxylation) 11 4 1
superpathway of ubiquinol-8 biosynthesis (early decarboxylation) 12 10 1
superpathway of L-arginine and L-ornithine degradation 13 9 1
superpathway of purines degradation in plants 18 14 1
anaerobic aromatic compound degradation (Thauera aromatica) 27 4 1
superpathway of pentose and pentitol degradation 42 16 1
superpathway of chorismate metabolism 59 42 1