Experiment set28IT013 for Pseudomonas putida KT2440

Nicotinic Acid nitrogen source

Group: nitrogen source
Media: MOPS minimal media_Glucose_noNitrogen + Nicotinic Acid (10 mM)
Culturing: Putida_ML5_JBEI, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=200 rpm
By: Mitchell Thompson on 11/16/20
Media components: 10 mM D-Glucose, 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 1.32 mM Potassium phosphate dibasic, 0.01 mM Iron (II) sulfate heptahydrate, 0.276 mM Aluminum potassium sulfate dodecahydrate, 0.0005 mM Calcium chloride, 0.525 mM Magnesium chloride hexahydrate, 50 mM Sodium Chloride, 3e-09 M Ammonium heptamolybdate tetrahydrate, 4e-07 M Boric Acid, 3e-08 M Cobalt chloride hexahydrate, 1e-08 M Copper (II) sulfate pentahydrate, 8e-08 M Manganese (II) chloride tetrahydrate, 1e-08 M Zinc sulfate heptahydrate

Specific Phenotypes

For 11 genes in this experiment

For nitrogen source Nicotinic Acid in Pseudomonas putida KT2440

For nitrogen source Nicotinic Acid across organisms

SEED Subsystems

Subsystem	#Specific
Molybdenum cofactor biosynthesis	4
Transport of Molybdenum	3
Salicylate and gentisate catabolism	2
N-heterocyclic aromatic compound degradation	1
Protein chaperones	1
Proteolysis in bacteria, ATP-dependent	1
Salicylate ester degradation	1
cAMP signaling in bacteria	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Bile acid biosynthesis
• Arginine and proline metabolism
• 1- and 2-Methylnaphthalene degradation
• Naphthalene and anthracene degradation
• Fluorene degradation
• Butanoate metabolism
• Nicotinate and nicotinamide metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
nicotinate degradation I	6	6	6
methylsalicylate degradation	2	2	2
salicylate degradation I	1	1	1
picolinate degradation	7	4	4
nicotine degradation III (VPP pathway)	10	5	4
nicotinate degradation II	5	2	2
nicotine degradation II (pyrrolidine pathway)	11	6	4
superpathway of nicotinate degradation	18	6	6
chlorosalicylate degradation	7	4	2
creatinine degradation II	5	3	1
molybdopterin biosynthesis	6	4	1
superpathway of salicylate degradation	7	7	1
naphthalene degradation to acetyl-CoA	12	3	1
superpathway of aromatic compound degradation via 2-hydroxypentadienoate	42	13	1