Experiment setAIT083 for Pseudomonas fluorescens FW300-N2E2

Gly-Glu nitrogen source

Group: nitrogen source
Media: RCH2_defined_Glucose_noNitrogen + Gly-Glu (20 mM)
Culturing: pseudo6_N2E2_ML5, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=500 rpm
Growth: about 3.3 generations
By: Mark on 1/21/2016
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 23 genes in this experiment

For nitrogen source Gly-Glu in Pseudomonas fluorescens FW300-N2E2

For nitrogen source Gly-Glu across organisms

SEED Subsystems

Subsystem	#Specific
ABC transporter dipeptide (TC 3.A.1.5.2)	5
Arginine and Ornithine Degradation	3
Multidrug Resistance, Tripartite Systems Found in Gram Negative Bacteria	3
Bacterial Chemotaxis	2
D-ribose utilization	2
Deoxyribose and Deoxynucleoside Catabolism	1
Glycine and Serine Utilization	1
Glycine cleavage system	1
HMG CoA Synthesis	1
Leucine Degradation and HMG-CoA Metabolism	1
Maltose and Maltodextrin Utilization	1
NAD and NADP cofactor biosynthesis global	1
NAD regulation	1
Photorespiration (oxidative C2 cycle)	1
Polyamine Metabolism	1
Serine-glyoxylate cycle	1
Trehalose Biosynthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pentose phosphate pathway
• Glycine, serine and threonine metabolism
• Valine, leucine and isoleucine degradation
• Starch and sucrose metabolism
• Nicotinate and nicotinamide metabolism
• Nitrogen metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
ribose phosphorylation	2	2	1
glycine biosynthesis II	3	3	1
glycine cleavage	3	3	1
2-deoxy-D-ribose degradation I	3	2	1
NAD salvage pathway II (PNC IV cycle)	5	4	1
NAD de novo biosynthesis I	6	5	1
L-leucine degradation I	6	5	1
NAD de novo biosynthesis IV (anaerobic)	6	5	1
NAD de novo biosynthesis III	6	4	1
NAD salvage pathway I (PNC VI cycle)	7	5	1
aspartate superpathway	25	22	1