Experiment set13H14 for Pseudomonas stutzeri RCH2

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L-Citrulline nitrogen source

Group: nitrogen source
Media: RCH2_defined_noNitrogen + L-Citrulline (5 mM), pH=7.2
Culturing: psRCH2_ML7c, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 4.4 generations
By: Kelly on 2/27/2014
Media components: 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM Sodium D,L-Lactate, 30 mM PIPES sesquisodium salt, Wolfe's mineral mix (0.03 g/L Magnesium Sulfate Heptahydrate, 0.015 g/L Nitrilotriacetic acid, 0.01 g/L Sodium Chloride, 0.005 g/L Manganese (II) sulfate monohydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc sulfate heptahydrate, 0.001 g/L Calcium chloride dihydrate, 0.001 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.0002 g/L Aluminum potassium sulfate dodecahydrate, 0.0001 g/L Copper (II) sulfate pentahydrate, 0.0001 g/L Boric Acid, 0.0001 g/L Sodium Molybdate Dihydrate, 0.003 mg/L Sodium selenite pentahydrate), Wolfe's vitamin mix (0.1 mg/L Pyridoxine HCl, 0.05 mg/L 4-Aminobenzoic acid, 0.05 mg/L Lipoic acid, 0.05 mg/L Nicotinic Acid, 0.05 mg/L Riboflavin, 0.05 mg/L Thiamine HCl, 0.05 mg/L calcium pantothenate, 0.02 mg/L biotin, 0.02 mg/L Folic Acid, 0.001 mg/L Cyanocobalamin)

Specific Phenotypes

For 7 genes in this experiment

For nitrogen source L-Citrulline in Pseudomonas stutzeri RCH2

For nitrogen source L-Citrulline across organisms

SEED Subsystems

Subsystem #Specific
Urea decomposition 3
Acid resistance mechanisms 1
Arginine and Ornithine Degradation 1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 1
Polyamine Metabolism 1
Rhamnose containing glycans 1
dTDP-rhamnose synthesis 1
linker unit-arabinogalactan synthesis 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-glutamine biosynthesis I 1 1 1
arginine dependent acid resistance 1 1 1
ammonia assimilation cycle I 2 2 1
L-arginine degradation III (arginine decarboxylase/agmatinase pathway) 2 1 1
putrescine biosynthesis I 2 1 1
ammonia assimilation cycle II 2 1 1
urea degradation I 3 3 1
ammonia assimilation cycle III 3 3 1
glycine cleavage 3 3 1
L-arginine degradation IV (arginine decarboxylase/agmatine deiminase pathway) 3 3 1
glycine biosynthesis II 3 3 1
putrescine biosynthesis II 3 3 1
L-aspartate degradation II (aerobic) 3 2 1
superpathway of ammonia assimilation (plants) 3 2 1
L-aspartate degradation III (anaerobic) 3 2 1
putrescine degradation II 4 3 1
superpathway of putrescine biosynthesis 4 2 1
spermidine biosynthesis III 4 1 1
dTDP-β-L-rhamnose biosynthesis 5 5 1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation 11 6 2
superpathway of allantoin degradation in yeast 6 5 1
superpathway of L-arginine and L-ornithine degradation 13 8 2
L-glutamate and L-glutamine biosynthesis 7 5 1
superpathway of ornithine degradation 8 6 1
superpathway of polyamine biosynthesis I 8 5 1
superpathway of polyamine biosynthesis II 8 5 1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis 19 7 2
L-arginine biosynthesis II (acetyl cycle) 10 10 1
O-antigen building blocks biosynthesis (E. coli) 11 11 1
superpathway of arginine and polyamine biosynthesis 17 14 1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis 33 14 1