Experiment set10S402 for Enterobacter sp. TBS_079

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L-Phenylalanine nitrogen source

Group: nitrogen source
Media: RCH2_defined_Glucose_noNitrogen + L-Phenylalanine (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 9 genes in this experiment

For nitrogen source L-Phenylalanine in Enterobacter sp. TBS_079

For nitrogen source L-Phenylalanine across organisms

SEED Subsystems

Subsystem #Specific
Chorismate Synthesis 1
Coenzyme B12 biosynthesis 1
Common Pathway For Synthesis of Aromatic Compounds (DAHP synthase to chorismate) 1
DNA-binding regulatory proteins, strays 1
Dissimilatory nitrite reductase 1
Experimental tye 1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 1
Glycine cleavage system 1
Heme and Siroheme Biosynthesis 1
Nitrate and nitrite ammonification 1
Orphan regulatory proteins 1
Pyruvate Alanine Serine Interconversions 1
Respiratory dehydrogenases 1 1
Ribosomal protein S5p acylation 1
Ribosome biogenesis bacterial 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
siroheme biosynthesis 4 4 4
L-alanine biosynthesis II 1 1 1
3-(4-hydroxyphenyl)pyruvate biosynthesis 1 1 1
L-aspartate degradation I 1 1 1
L-alanine degradation III 1 1 1
L-aspartate biosynthesis 1 1 1
superpathway of L-alanine biosynthesis 4 4 2
3-dehydroquinate biosynthesis I 2 2 1
L-glutamate degradation II 2 2 1
malate/L-aspartate shuttle pathway 2 2 1
L-alanine degradation V (oxidative Stickland reaction) 2 2 1
L-alanine biosynthesis I 2 2 1
L-alanine degradation I 2 2 1
L-tryptophan degradation IV (via indole-3-lactate) 2 1 1
atromentin biosynthesis 2 1 1
nitrate reduction V (assimilatory) 2 1 1
alkylnitronates degradation 2 1 1
L-tyrosine degradation II 2 1 1
factor 430 biosynthesis 7 3 3
C4 photosynthetic carbon assimilation cycle, NAD-ME type 11 8 4
L-tyrosine biosynthesis I 3 3 1
L-phenylalanine biosynthesis I 3 3 1
pyruvate fermentation to acetate and alanine 3 2 1
L-phenylalanine degradation II (anaerobic) 3 2 1
L-alanine degradation II (to D-lactate) 3 2 1
L-asparagine degradation III (mammalian) 3 2 1
indole-3-acetate biosynthesis VI (bacteria) 3 2 1
L-tyrosine degradation IV (to 4-methylphenol) 3 1 1
(R)-cysteate degradation 3 1 1
sulfolactate degradation III 3 1 1
anaerobic energy metabolism (invertebrates, cytosol) 7 5 2
C4 photosynthetic carbon assimilation cycle, PEPCK type 14 9 4
superpathway of L-aspartate and L-asparagine biosynthesis 4 4 1
L-tyrosine degradation III 4 2 1
L-tryptophan degradation VIII (to tryptophol) 4 2 1
L-phenylalanine degradation III 4 2 1
superpathway of aromatic amino acid biosynthesis 18 18 4
superpathway of L-tyrosine biosynthesis 10 10 2
superpathway of L-phenylalanine biosynthesis 10 10 2
trans-4-hydroxy-L-proline degradation I 5 3 1
cob(II)yrinate a,c-diamide biosynthesis I (early cobalt insertion) 15 3 3
L-tyrosine degradation I 5 1 1
L-phenylalanine degradation VI (reductive Stickland reaction) 5 1 1
L-tyrosine degradation V (reductive Stickland reaction) 5 1 1
4-hydroxybenzoate biosynthesis I (eukaryotes) 5 1 1
L-tryptophan degradation XIII (reductive Stickland reaction) 5 1 1
superpathway of plastoquinol biosynthesis 5 1 1
superpathway of L-threonine biosynthesis 6 6 1
L-tryptophan biosynthesis 6 6 1
TCA cycle VIII (Chlamydia) 6 5 1
L-alanine degradation VI (reductive Stickland reaction) 6 2 1
superpathway of sulfolactate degradation 6 2 1
coenzyme M biosynthesis II 6 1 1
superpathway of L-tryptophan biosynthesis 13 13 2
cob(II)yrinate a,c-diamide biosynthesis II (late cobalt incorporation) 13 2 2
chorismate biosynthesis I 7 7 1
superpathway of anaerobic energy metabolism (invertebrates) 17 10 2
superpathway of L-methionine biosynthesis (transsulfuration) 9 9 1
superpathway of L-alanine fermentation (Stickland reaction) 9 5 1
L-phenylalanine degradation IV (mammalian, via side chain) 9 4 1
rosmarinic acid biosynthesis I 10 1 1
(S)-reticuline biosynthesis I 11 1 1
superpathway of L-methionine biosynthesis (by sulfhydrylation) 12 10 1
adenosylcobalamin biosynthesis I (anaerobic) 36 12 3
indole-3-acetate biosynthesis II 12 3 1
superpathway of L-isoleucine biosynthesis I 13 13 1
superpathway of rosmarinic acid biosynthesis 14 1 1
superpathway of chorismate metabolism 59 54 4
adenosylcobalamin biosynthesis II (aerobic) 33 13 2
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 18 1
aspartate superpathway 25 24 1
anaerobic aromatic compound degradation (Thauera aromatica) 27 3 1
Methanobacterium thermoautotrophicum biosynthetic metabolism 56 22 2