Experiment set9IT081 for Ralstonia sp. UNC404CL21Col

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Protocatechuic Acid carbon source

Group: carbon source
Media: MOPS minimal media_noCarbon + Protocatechuic Acid (10 mM)
Culturing: CL21_ML4_JBEI, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 2.5 generations
By: Allie Pearson on 8/26/19
Media components: 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 1.32 mM Potassium phosphate dibasic, 0.01 mM Iron (II) sulfate heptahydrate, 9.5 mM Ammonium chloride, 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 7 genes in this experiment

For carbon source Protocatechuic Acid in Ralstonia sp. UNC404CL21Col

For carbon source Protocatechuic Acid across organisms

SEED Subsystems

Subsystem #Specific
Protocatechuate branch of beta-ketoadipate pathway 3
ABC transporter branched-chain amino acid (TC 3.A.1.4.1) 1
Benzoate degradation 1
Catechol branch of beta-ketoadipate pathway 1
Chloroaromatic degradation pathway 1
Homogentisate pathway of aromatic compound degradation 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
protocatechuate degradation II (ortho-cleavage pathway) 4 4 3
aromatic compounds degradation via β-ketoadipate 9 9 3
D-phenylglycine degradation 3 1 1
toluene degradation III (aerobic) (via p-cresol) 11 7 3
catechol degradation to β-ketoadipate 4 4 1
4-sulfocatechol degradation 4 1 1
gallate degradation II 5 2 1
mandelate degradation I 5 1 1
catechol degradation III (ortho-cleavage pathway) 6 6 1
4-hydroxymandelate degradation 6 2 1
superpathway of salicylate degradation 7 7 1
4-methylcatechol degradation (ortho cleavage) 7 4 1
superpathway of aromatic compound degradation via 3-oxoadipate 35 18 5
indole-3-acetate degradation II 7 2 1
mandelate degradation to acetyl-CoA 18 9 2
superpathway of aerobic toluene degradation 30 9 3
superpathway of aromatic compound degradation via 2-hydroxypentadienoate 42 11 2