Experiment set12IT058 for Pseudomonas putida KT2440

L-Glutamic acid monopotassium salt monohydrate carbon source

Group: carbon source
Media: MOPS minimal media_noCarbon + L-Glutamic acid monopotassium salt monohydrate (10 mM) + Dimethyl Sulfoxide (1 vol%)
Culturing: Putida_ML5_JBEI, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=700rpm
By: Matthew Incha on 12-Feb-19
Media components: 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 1.32 mM Potassium phosphate dibasic, 0.01 mM Iron (II) sulfate heptahydrate, 9.5 mM Ammonium chloride, 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 12 genes in this experiment

For carbon source L-Glutamic acid monopotassium salt monohydrate in Pseudomonas putida KT2440

For carbon source L-Glutamic acid monopotassium salt monohydrate across organisms

SEED Subsystems

Subsystem	#Specific
Cyanate hydrolysis	1
DNA-binding regulatory proteins, strays	1
Pyrimidine utilization	1
Sialic Acid Metabolism	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Urea cycle and metabolism of amino groups
• Methionine metabolism
• Lysine biosynthesis
• Arginine and proline metabolism
• Tyrosine metabolism
• Phenylalanine metabolism
• Phenylalanine, tyrosine and tryptophan biosynthesis
• Novobiocin biosynthesis
• Atrazine degradation
• Alkaloid biosynthesis I
• Alkaloid biosynthesis II
• Biosynthesis of phenylpropanoids
• Biosynthesis of alkaloids derived from shikimate pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
3-(4-hydroxyphenyl)pyruvate biosynthesis	1	1	1
urea degradation I	3	2	2
L-phenylalanine biosynthesis III (cytosolic, plants)	2	2	1
L-tyrosine degradation II	2	1	1
atromentin biosynthesis	2	1	1
cyanuric acid degradation II	5	3	2
cyanuric acid degradation I	5	2	2
L-phenylalanine biosynthesis I	3	3	1
L-tyrosine biosynthesis I	3	3	1
L-citrulline degradation	3	3	1
L-phenylalanine degradation II (anaerobic)	3	2	1
cyanate degradation	3	2	1
superpathway of allantoin degradation in yeast	6	3	2
L-tyrosine degradation IV (to 4-methylphenol)	3	1	1
L-arginine degradation V (arginine deiminase pathway)	4	4	1
L-tyrosine degradation III	4	2	1
L-phenylalanine degradation III	4	2	1
superpathway of atrazine degradation	8	3	2
L-tyrosine degradation I	5	5	1
uracil degradation III	5	3	1
superpathway of plastoquinol biosynthesis	5	2	1
4-hydroxybenzoate biosynthesis I (eukaryotes)	5	2	1
L-phenylalanine degradation VI (reductive Stickland reaction)	5	1	1
L-tyrosine degradation V (reductive Stickland reaction)	5	1	1
superpathway of aromatic amino acid biosynthesis	18	18	2
L-phenylalanine degradation IV (mammalian, via side chain)	9	6	1
allantoin degradation IV (anaerobic)	9	2	1
superpathway of L-tyrosine biosynthesis	10	10	1
superpathway of L-phenylalanine biosynthesis	10	10	1
rosmarinic acid biosynthesis I	10	2	1
(S)-reticuline biosynthesis I	11	3	1
tropane alkaloids biosynthesis	11	1	1
superpathway of rosmarinic acid biosynthesis	14	2	1
superpathway of hyoscyamine (atropine) and scopolamine biosynthesis	16	3	1
anaerobic aromatic compound degradation (Thauera aromatica)	27	4	1
superpathway of chorismate metabolism	59	42	2