Experiment set1IT067 for Escherichia coli BW25113

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D-Galacturonic Acid monohydrate carbon source MOPS

Group: carbon source
Media: MOPS Rich Defined media_noCarbon + D-Galacturonic Acid monohydrate (20 mM)
Culturing: Keio_ML9, tube, Aerobic, at 37 (C), shaken=200 rpm
Growth: about 5.8 generations
By: Kelly on 6/19/2014
Media components: 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 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, 1.32 mM Potassium phosphate dibasic, 1.5 mM Potassium hydroxide, 0.2 mM Adenine hydrochloride hydrate, 0.2 mM Cytosine, 0.2 mM Uracil, 0.2 mM Guanine, 0.8 mM L-Alanine, 5.2 mM L-Arginine, 0.4 mM L-Asparagine, 0.4 mM L-Aspartic acid potassium salt, 0.66 mM L-Glutamic acid monopotassium salt monohydrate, 0.6 mM L-Glutamine, 0.8 mM Glycine, 0.2 mM L-Histidine, 0.4 mM L-Isoleucine, 0.4 mM L-Proline, 10 mM L-Serine, 0.4 mM L-Threonine, 0.1 mM L-Tryptophan, 0.6 mM L-Valine, 0.8 mM L-Leucine, 0.4 mM L-Lysine, 0.2 mM L-Methionine, 0.4 mM L-Phenylalanine, 0.1 mM L-Cysteine hydrochloride monohydrate, 0.2 mM L-tyrosine, 0.01 mM Thiamine HCl, 0.01 mM calcium pantothenate, 0.01 mM 4-Aminobenzoic acid, 0.01 mM 4-Hydroxybenzoic Acid, 0.01 mM 2,3-dihydroxybenzoic acid

Specific Phenotypes

For 9 genes in this experiment

For carbon source D-Galacturonic Acid monohydrate in Escherichia coli BW25113

For carbon source D-Galacturonic Acid monohydrate across organisms

SEED Subsystems

Subsystem #Specific
Biotin biosynthesis 2
D-Galacturonate and D-Glucuronate Utilization 2
D-gluconate and ketogluconates metabolism 1
Entner-Doudoroff Pathway 1
Glycine and Serine Utilization 1
Pyruvate Alanine Serine Interconversions 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
8-amino-7-oxononanoate biosynthesis II 2 1 1
8-amino-7-oxononanoate biosynthesis III 2 1 1
D-galacturonate degradation I 5 5 2
D-serine degradation 3 3 1
L-serine degradation 3 3 1
L-tryptophan degradation II (via pyruvate) 3 3 1
L-methionine degradation II 3 2 1
L-cysteine degradation II 3 2 1
8-amino-7-oxononanoate biosynthesis I 11 11 3
biotin biosynthesis I 15 15 4
D-fructuronate degradation 4 4 1
biotin biosynthesis from 8-amino-7-oxononanoate I 4 4 1
superpathway of hexuronide and hexuronate degradation 10 10 2
8-amino-7-oxononanoate biosynthesis IV 5 4 1
4-deoxy-L-threo-hex-4-enopyranuronate degradation 5 4 1
felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis 5 2 1
L-threonine degradation I 6 6 1
L-methionine biosynthesis II 6 5 1
biotin biosynthesis II 6 4 1
L-isoleucine biosynthesis I (from threonine) 7 7 1
superpathway of β-D-glucuronosides degradation 7 7 1
glycine betaine degradation III 7 4 1
3,6-anhydro-α-L-galactopyranose degradation 7 4 1
alginate degradation 7 1 1
glycine betaine degradation I 8 4 1
L-mimosine degradation 8 4 1
glutathione-mediated detoxification I 8 3 1
Entner-Doudoroff pathway III (semi-phosphorylative) 9 6 1
superpathway of L-isoleucine biosynthesis I 13 13 1
hypoglycin biosynthesis 14 4 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II 15 13 1
superpathway of microbial D-galacturonate and D-glucuronate degradation 31 19 2
superpathway of branched chain amino acid biosynthesis 17 17 1
superpathway of L-threonine metabolism 18 16 1
purine nucleobases degradation II (anaerobic) 24 17 1