Experiment set17IT026 for Pseudomonas fluorescens SBW25-INTG

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p-Coumaric acid (C) 5 mM

Group: carbon source
Media: MME_noNitrogen_noCarbon + p-Coumaric acid (5 mM) + Ammonium chloride (10 mM)
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=1200 rpm
By: Joshua Elmore on October 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 52 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
Transport of Zinc 5
Lipid A modifications 3
Multidrug Resistance, Tripartite Systems Found in Gram Negative Bacteria 2
Orphan regulatory proteins 2
ABC transporter alkylphosphonate (TC 3.A.1.9.1) 1
ABC transporter oligopeptide (TC 3.A.1.5.1) 1
Alkanesulfonate assimilation 1
Bacterial Cytoskeleton 1
Cinnamic Acid Degradation 1
Conserved gene cluster associated with Met-tRNA formyltransferase 1
DNA repair, bacterial 1
Experimental tye 1
Folate Biosynthesis 1
Gentisare degradation 1
Heat shock dnaK gene cluster extended 1
Nudix proteins (nucleoside triphosphate hydrolases) 1
Peptidoglycan Biosynthesis 1
Phenylpropanoid compound degradation 1
Polyamine Metabolism 1
Queuosine-Archaeosine Biosynthesis 1
Salicylate and gentisate catabolism 1
Taurine Utilization 1
Thiamin biosynthesis 1
Ton and Tol transport systems 1
Trehalose Uptake and Utilization 1
Universal stress protein family 1
p-Hydroxybenzoate degradation 1
tRNA processing 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
UDP-α-D-glucuronate biosynthesis (from UDP-glucose) 1 1 1
glyphosate degradation II 1 1 1
taurine degradation IV 1 1 1
UDP-α-D-xylose biosynthesis 2 1 1
sucrose degradation I (sucrose phosphotransferase) 3 2 1
6-hydroxymethyl-dihydropterin diphosphate biosynthesis IV (Plasmodium) 3 2 1
tetrahydromonapterin biosynthesis 4 2 1
4-chlorobenzoate degradation 4 2 1
erythro-tetrahydrobiopterin biosynthesis I 4 2 1
threo-tetrahydrobiopterin biosynthesis 4 2 1
preQ0 biosynthesis 4 2 1
tRNA processing 10 10 2
4-hydroxybenzoate biosynthesis III (plants) 5 4 1
6-hydroxymethyl-dihydropterin diphosphate biosynthesis I 5 3 1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis 6 4 1
superpathway of taurine degradation 6 2 1
drosopterin and aurodrosopterin biosynthesis 7 5 1
thiazole component of thiamine diphosphate biosynthesis II 7 5 1
butanol and isobutanol biosynthesis (engineered) 8 3 1
teichuronic acid biosynthesis (B. subtilis 168) 9 2 1
UDP-sugars interconversion 9 2 1
superpathway of tetrahydrofolate biosynthesis 10 8 1
colanic acid building blocks biosynthesis 11 11 1
superpathway of thiamine diphosphate biosynthesis II 11 9 1
superpathway of tetrahydrofolate biosynthesis and salvage 12 10 1
superpathway of chorismate metabolism 59 42 1