Experiment set2IT070 for Pseudomonas fluorescens FW300-N2C3

L-Arginine carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + L-Arginine (10 mM), pH=7.2
Culturing: pseudo5_N2-C3_1_ML2, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 5.7 generations
By: Jayashree on 6/12/2014
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)

Specific Phenotypes

For 10 genes in this experiment

For carbon source L-Arginine in Pseudomonas fluorescens FW300-N2C3

For carbon source L-Arginine across organisms

SEED Subsystems

Subsystem	#Specific
Arginine and Ornithine Degradation	4
Transport of Zinc	2
ABC transporter oligopeptide (TC 3.A.1.5.1)	1
Glutamate dehydrogenases	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Polyamine Metabolism	1

Metabolic Maps

Color code by fitness: see overview map or list of maps.

Maps containing gene(s) with specific phenotypes:

• Arginine and proline metabolism
• Urea cycle and metabolism of amino groups
• Glutamate metabolism
• Nitrogen metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamate degradation I	1	1	1
L-arginine degradation IV (arginine decarboxylase/agmatine deiminase pathway)	3	3	2
putrescine biosynthesis II	3	3	2
L-alanine degradation II (to D-lactate)	3	3	1
ethene biosynthesis IV (engineered)	3	1	1
superpathway of polyamine biosynthesis II	8	5	2
L-glutamate degradation XI (reductive Stickland reaction)	7	3	1
4-aminobutanoate degradation V	7	2	1
L-glutamate degradation V (via hydroxyglutarate)	10	6	1
methylaspartate cycle	19	10	1