Experiment set10S419 for Enterobacter sp. TBS_079

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Uridine nitrogen source

Group: nitrogen source
Media: RCH2_defined_Glucose_noNitrogen + Uridine (10 mM)
Culturing: Enterobacter_TBS_079_ML3, microplate, Aerobic, at 30 (C)
By: Robin on 6/19/24
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 7 genes in this experiment

For nitrogen source Uridine in Enterobacter sp. TBS_079

For nitrogen source Uridine across organisms

SEED Subsystems

Subsystem #Specific
Pyrimidine utilization 4
Lysine Biosynthesis DAP Pathway 1
Threonine and Homoserine Biosynthesis 1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
uracil degradation III 5 5 3
β-alanine degradation III 2 1 1
L-homoserine biosynthesis 3 3 1
NAD salvage pathway III (to nicotinamide riboside) 3 3 1
UTP and CTP dephosphorylation I 7 5 2
purine nucleotides degradation II (aerobic) 11 9 3
inosine 5'-phosphate degradation 4 3 1
guanosine nucleotides degradation III 4 3 1
guanosine nucleotides degradation II 4 3 1
dipicolinate biosynthesis 4 3 1
purine nucleotides degradation I (plants) 12 8 3
adenosine nucleotides degradation I 8 5 2
spermidine biosynthesis II 4 2 1
L-methionine biosynthesis IV 4 2 1
guanosine nucleotides degradation I 4 2 1
ectoine biosynthesis 5 3 1
adenosine nucleotides degradation II 5 3 1
dibenzothiophene desulfurization 5 1 1
superpathway of L-threonine biosynthesis 6 6 1
norspermidine biosynthesis 6 4 1
superpathway of guanosine nucleotides degradation (plants) 6 4 1
superpathway of purines degradation in plants 18 11 3
L-lysine biosynthesis VI 7 6 1
L-lysine biosynthesis III 7 6 1
ureide biosynthesis 7 6 1
3-dehydroquinate biosynthesis II (archaea) 7 3 1
cremeomycin biosynthesis 7 2 1
superpathway of L-homoserine and L-methionine biosynthesis 8 8 1
bacterial bioluminescence 8 4 1
superpathway of polyamine biosynthesis III 8 4 1
grixazone biosynthesis 8 2 1
superpathway of S-adenosyl-L-methionine biosynthesis 9 9 1
L-lysine biosynthesis I 9 9 1
superpathway of L-methionine biosynthesis (transsulfuration) 9 9 1
L-lysine biosynthesis II 9 6 1
tunicamycin biosynthesis 9 2 1
NAD salvage (plants) 11 5 1
superpathway of L-methionine biosynthesis (by sulfhydrylation) 12 10 1
chorismate biosynthesis II (archaea) 12 8 1
superpathway of L-isoleucine biosynthesis I 13 13 1
3-hydroxypropanoate cycle 13 6 1
glyoxylate assimilation 13 5 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II 15 13 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 18 1
3-hydroxypropanoate/4-hydroxybutanate cycle 18 9 1
superpathway of the 3-hydroxypropanoate cycle 18 6 1
aspartate superpathway 25 24 1
platensimycin biosynthesis 26 6 1