Experiment set5IT093 for Pseudomonas fluorescens FW300-N2C3

Putrescine Dihydrochloride nitrogen source

Group: nitrogen source
Media: RCH2_defined_Glucose_noNitrogen + Putrescine Dihydrochloride (5 mM), pH=7
Culturing: pseudo5_N2-C3_1_ML2, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
By: Mark on 12/17/2014
Media components: 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM D-Glucose, 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 2 genes in this experiment

For nitrogen source Putrescine Dihydrochloride in Pseudomonas fluorescens FW300-N2C3

For nitrogen source Putrescine Dihydrochloride across organisms

SEED Subsystems

Subsystem	#Specific
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:

• Arginine and proline metabolism
• Glutamate metabolism
• Alanine and aspartate metabolism
• beta-Alanine metabolism
• Propanoate metabolism
• Urea cycle and metabolism of amino groups
• Methionine metabolism
• Valine, leucine and isoleucine degradation
• Lysine biosynthesis
• Lysine degradation
• Aminophosphonate metabolism
• Nucleotide sugars metabolism
• Butanoate metabolism
• Nitrogen metabolism
• Caprolactam degradation

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamine biosynthesis I	1	1	1
β-alanine degradation II	2	2	1
putrescine degradation V	2	2	1
4-aminobutanoate degradation II	2	2	1
ammonia assimilation cycle I	2	2	1
4-aminobutanoate degradation III	2	2	1
ammonia assimilation cycle II	2	2	1
4-aminobutanoate degradation I	2	1	1
superpathway of ammonia assimilation (plants)	3	3	1
ammonia assimilation cycle III	3	3	1
superpathway of 4-aminobutanoate degradation	3	2	1
L-aspartate degradation II (aerobic)	3	2	1
L-aspartate degradation III (anaerobic)	3	2	1
putrescine degradation II	4	4	1
GABA shunt II	4	2	1
GABA shunt I	4	1	1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation	11	10	2
β-alanine biosynthesis II	6	5	1
superpathway of L-arginine and L-ornithine degradation	13	12	2
L-glutamate and L-glutamine biosynthesis	7	6	1
4-aminobutanoate degradation V	7	2	1
superpathway of ornithine degradation	8	8	1
L-arginine biosynthesis II (acetyl cycle)	10	10	1
superpathway of coenzyme A biosynthesis II (plants)	10	9	1
nicotine degradation I (pyridine pathway)	17	7	1