Experiment set11IT075 for Pseudomonas putida KT2440

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carbon source Bisabolene 48.9 mM

Group: carbon source
Media: MOPS minimal media_noCarbon + Bisabolene (48.9 mM)
Culturing: Putida_ML5_JBEI, tube, Aerobic, at 30 (C), shaken=200 rpm
By: Thomas Eng on 09/16/2018
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 5 genes in this experiment

For carbon source Bisabolene in Pseudomonas putida KT2440

For carbon source Bisabolene across organisms

SEED Subsystems

Subsystem #Specific
Methionine Biosynthesis 2
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 1
Methionine Degradation 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
L-aspartate degradation I 1 1 1
3-(4-hydroxyphenyl)pyruvate biosynthesis 1 1 1
L-aspartate biosynthesis 1 1 1
malate/L-aspartate shuttle pathway 2 2 1
L-glutamate degradation II 2 2 1
L-tryptophan degradation IV (via indole-3-lactate) 2 1 1
atromentin biosynthesis 2 1 1
L-tyrosine degradation II 2 1 1
L-phenylalanine biosynthesis I 3 3 1
L-tyrosine biosynthesis I 3 3 1
L-asparagine degradation III (mammalian) 3 2 1
L-phenylalanine degradation II (anaerobic) 3 2 1
L-tyrosine degradation IV (to 4-methylphenol) 3 1 1
sulfolactate degradation III 3 1 1
(R)-cysteate degradation 3 1 1
indole-3-acetate biosynthesis VI (bacteria) 3 1 1
superpathway of L-aspartate and L-asparagine biosynthesis 4 3 1
L-tyrosine degradation III 4 2 1
L-phenylalanine degradation III 4 2 1
L-tryptophan degradation VIII (to tryptophol) 4 1 1
L-tyrosine degradation I 5 5 1
trans-4-hydroxy-L-proline degradation I 5 3 1
4-hydroxybenzoate biosynthesis I (eukaryotes) 5 2 1
superpathway of plastoquinol biosynthesis 5 2 1
L-tyrosine degradation V (reductive Stickland reaction) 5 1 1
L-phenylalanine degradation VI (reductive Stickland reaction) 5 1 1
L-tryptophan degradation XIII (reductive Stickland reaction) 5 1 1
C4 photosynthetic carbon assimilation cycle, NAD-ME type 11 7 2
superpathway of L-threonine biosynthesis 6 6 1
TCA cycle VIII (Chlamydia) 6 5 1
superpathway of sulfolactate degradation 6 2 1
coenzyme M biosynthesis II 6 1 1
anaerobic energy metabolism (invertebrates, cytosol) 7 5 1
C4 photosynthetic carbon assimilation cycle, PEPCK type 14 8 2
superpathway of aromatic amino acid biosynthesis 18 18 2
superpathway of L-methionine biosynthesis (transsulfuration) 9 7 1
L-phenylalanine degradation IV (mammalian, via side chain) 9 6 1
superpathway of L-tyrosine biosynthesis 10 10 1
superpathway of L-phenylalanine biosynthesis 10 10 1
glycolysis IV 10 8 1
rosmarinic acid biosynthesis I 10 2 1
(S)-reticuline biosynthesis I 11 3 1
superpathway of L-methionine biosynthesis (by sulfhydrylation) 12 12 1
indole-3-acetate biosynthesis II 12 5 1
superpathway of L-isoleucine biosynthesis I 13 13 1
superpathway of rosmarinic acid biosynthesis 14 2 1
superpathway of anaerobic energy metabolism (invertebrates) 17 10 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 16 1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle 22 18 1
aspartate superpathway 25 22 1
anaerobic aromatic compound degradation (Thauera aromatica) 27 4 1
superpathway of chorismate metabolism 59 42 2
Methanobacterium thermoautotrophicum biosynthetic metabolism 56 21 1