Experiment set10IT005 for Pseudomonas putida KT2440

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L-Alanine carbon source

Group: carbon source
Media: MOPS minimal media_noCarbon + L-Alanine (10 mM)
Culturing: Putida_ML5_JBEI, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 3.8 generations
By: Mitchell Thompson on 10/1/18
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 33 genes in this experiment

For carbon source L-Alanine in Pseudomonas putida KT2440

For carbon source L-Alanine across organisms

SEED Subsystems

Subsystem #Specific
ABC transporter branched-chain amino acid (TC 3.A.1.4.1) 8
Arginine and Ornithine Degradation 5
ABC transporter dipeptide (TC 3.A.1.5.2) 3
Pyruvate Alanine Serine Interconversions 2
Respiratory dehydrogenases 1 2
Bacterial RNA-metabolizing Zn-dependent hydrolases 1
Branched-Chain Amino Acid Biosynthesis 1
Conserved gene cluster associated with Met-tRNA formyltransferase 1
DNA repair, bacterial MutL-MutS system 1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 1
Glycine and Serine Utilization 1
Homogentisate pathway of aromatic compound degradation 1
Methionine Biosynthesis 1
Multidrug Resistance Efflux Pumps 1
Proline, 4-hydroxyproline uptake and utilization 1
Ribosome biogenesis bacterial 1
Ton and Tol transport systems 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-asparagine degradation I 1 1 1
L-proline degradation I 3 3 2
L-alanine degradation I 2 2 1
L-arginine degradation I (arginase pathway) 3 2 1
L-asparagine degradation III (mammalian) 3 2 1
superpathway of L-aspartate and L-asparagine biosynthesis 4 3 1
homocysteine and cysteine interconversion 4 2 1
ethene biosynthesis II (microbes) 4 1 1
L-methionine biosynthesis I 5 3 1
N-(1-deoxy-D-fructos-1-yl)-L-asparagine degradation 5 2 1
L-methionine biosynthesis II 6 5 1
superpathway of L-cysteine biosynthesis (fungi) 6 4 1
(5R)-carbapenem carboxylate biosynthesis 6 1 1
L-Nδ-acetylornithine biosynthesis 7 5 1
L-citrulline biosynthesis 8 7 1
superpathway of L-homoserine and L-methionine biosynthesis 8 6 1
superpathway of S-adenosyl-L-methionine biosynthesis 9 7 1
superpathway of L-methionine biosynthesis (transsulfuration) 9 7 1
superpathway of sulfur amino acid biosynthesis (Saccharomyces cerevisiae) 10 8 1
superpathway of L-citrulline metabolism 12 9 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 16 1
aspartate superpathway 25 22 1