Experiment set4IT077 for Pseudomonas fluorescens FW300-N1B4

Compare to:

L-Citrulline carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + L-Citrulline (20 mM), pH=7
Culturing: pseudo1_N1B4_ML1, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
By: Mark on 12/16/2014
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 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)
Growth plate: Cplate2 A1

Specific Phenotypes

For 7 genes in this experiment

For carbon source L-Citrulline in Pseudomonas fluorescens FW300-N1B4

For carbon source L-Citrulline across organisms

SEED Subsystems

Subsystem #Specific
Arginine and Ornithine Degradation 5
Arginine Biosynthesis extended 1
Arginine Deiminase Pathway 1
Glutamate dehydrogenases 1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 1
Ketoisovalerate oxidoreductase 1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate 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
acetate conversion to acetyl-CoA 1 1 1
acetate and ATP formation from acetyl-CoA III 1 1 1
L-glutamate degradation I 1 1 1
ethanol degradation IV 3 3 1
ethanol degradation II 3 3 1
L-alanine degradation II (to D-lactate) 3 3 1
L-ornithine biosynthesis II 3 3 1
L-proline biosynthesis III (from L-ornithine) 3 3 1
superpathway of acetate utilization and formation 3 3 1
L-arginine degradation I (arginase pathway) 3 2 1
L-isoleucine biosynthesis V 3 2 1
ethene biosynthesis IV (engineered) 3 2 1
ethanol degradation III 3 2 1
L-arginine degradation VI (arginase 2 pathway) 4 3 1
chitin deacetylation 4 2 1
L-arginine degradation II (AST pathway) 5 5 1
L-arginine degradation XIII (reductive Stickland reaction) 5 5 1
L-ornithine biosynthesis I 5 5 1
2-methylcitrate cycle I 5 5 1
β-alanine biosynthesis II 6 5 1
2-methylcitrate cycle II 6 5 1
L-isoleucine biosynthesis IV 6 4 1
superpathway of bitter acids biosynthesis 18 3 3
colupulone and cohumulone biosynthesis 6 1 1
lupulone and humulone biosynthesis 6 1 1
adlupulone and adhumulone biosynthesis 6 1 1
L-Nδ-acetylornithine biosynthesis 7 5 1
L-glutamate degradation XI (reductive Stickland reaction) 7 3 1
4-aminobutanoate degradation V 7 2 1
L-citrulline biosynthesis 8 7 1
L-lysine biosynthesis I 9 9 1
L-arginine biosynthesis I (via L-ornithine) 9 9 1
L-arginine biosynthesis III (via N-acetyl-L-citrulline) 9 8 1
reductive glycine pathway of autotrophic CO2 fixation 9 5 1
cis-geranyl-CoA degradation 9 4 1
L-arginine biosynthesis II (acetyl cycle) 10 10 1
superpathway of coenzyme A biosynthesis II (plants) 10 8 1
L-glutamate degradation V (via hydroxyglutarate) 10 6 1
superpathway of L-citrulline metabolism 12 9 1
superpathway of arginine and polyamine biosynthesis 17 14 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 15 1
methylaspartate cycle 19 9 1
aspartate superpathway 25 21 1