Experiment set4S3 for Pseudomonas sp. RS175

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L-Arabinose carbon source 10 mM

Group: carbon source
Media: MME_noCarbon + L-Arabinose (10 mM)
Culturing: Pseudomonas_RS175_ML2, 96 deep well, Aerobic, at 30 (C), shaken=1200 rpm
By: Andrew Frank on 31-January-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 8 genes in this experiment

For carbon source L-Arabinose in Pseudomonas sp. RS175

For carbon source L-Arabinose across organisms

SEED Subsystems

Subsystem #Specific
L-Arabinose utilization 5
D-Galacturonate and D-Glucuronate Utilization 1
Nitrate and nitrite ammonification 1
Proline, 4-hydroxyproline uptake and utilization 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
L-arabinose degradation III 6 5 4
L-lyxonate degradation 3 2 2
pyruvate fermentation to acetate VIII 2 1 1
D-glucarate degradation II 3 3 1
D-galactarate degradation II 3 3 1
L-arabinose degradation V 6 3 2
L-carnitine degradation II 3 1 1
L-valine biosynthesis 4 4 1
trans-4-hydroxy-L-proline degradation II 4 4 1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) 8 7 2
L-arabinose degradation IV 8 6 2
1,2-dichloroethane degradation 4 2 1
D-glucuronate degradation II 5 4 1
cytosolic NADPH production (yeast) 5 4 1
pyruvate fermentation to isobutanol (engineered) 5 4 1
mitochondrial NADPH production (yeast) 5 4 1
D-galacturonate degradation II 5 3 1
D-xylose degradation V 5 1 1
D-xylose degradation III 5 1 1
L-isoleucine biosynthesis IV 6 4 1
D-arabinose degradation III 6 2 1
L-isoleucine biosynthesis I (from threonine) 7 7 1
L-isoleucine biosynthesis III 7 4 1
L-isoleucine biosynthesis II 8 5 1
superpathway of pentose and pentitol degradation 42 14 5
superpathway of branched chain amino acid biosynthesis 17 17 2
superpathway of L-isoleucine biosynthesis I 13 13 1
superpathway of L-threonine metabolism 18 13 1
superpathway of microbial D-galacturonate and D-glucuronate degradation 31 14 1