Experiment set8IT032 for Pseudomonas fluorescens FW300-N2E2

Compare to:

L-Leucine carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + L-Leucine (20 mM), pH=7
Culturing: pseudo6_N2E2_ML5, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=500 rpm
Growth: about 4.1 generations
By: Mark on 1/21/2016
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 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 30 genes in this experiment

For carbon source L-Leucine in Pseudomonas fluorescens FW300-N2E2

For carbon source L-Leucine across organisms

SEED Subsystems

Subsystem #Specific
ABC transporter branched-chain amino acid (TC 3.A.1.4.1) 9
Leucine Degradation and HMG-CoA Metabolism 5
HMG CoA Synthesis 3
Isoleucine degradation 2
Serine-glyoxylate cycle 2
Valine degradation 2
Benzoate transport and degradation cluster 1
Ethanolamine utilization 1
Fermentations: Lactate 1
Fermentations: Mixed acid 1
Folate Biosynthesis 1
Glutamate dehydrogenases 1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 1
L-rhamnose utilization 1
MLST 1
Proline, 4-hydroxyproline uptake and utilization 1
Propanediol utilization 1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate 1
Threonine anaerobic catabolism gene cluster 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-glutamate degradation I 1 1 1
acetate and ATP formation from acetyl-CoA I 2 2 1
L-leucine degradation I 6 5 3
sulfoacetaldehyde degradation I 2 1 1
L-alanine degradation II (to D-lactate) 3 3 1
dTMP de novo biosynthesis (mitochondrial) 3 3 1
tetrahydrofolate biosynthesis I 3 3 1
superpathway of acetate utilization and formation 3 3 1
pyruvate fermentation to acetate II 3 3 1
2-oxoisovalerate decarboxylation to isobutanoyl-CoA 3 3 1
pyruvate fermentation to acetate IV 3 2 1
pyruvate fermentation to acetate VII 3 2 1
pyruvate fermentation to acetate I 3 2 1
ethene biosynthesis IV (engineered) 3 1 1
putrescine degradation II 4 4 1
pyruvate fermentation to acetate and (S)-lactate I 4 3 1
tetrahydromonapterin biosynthesis 4 3 1
pyruvate fermentation to acetate and lactate II 4 2 1
sulfolactate degradation II 4 1 1
ethanolamine utilization 5 5 1
acetylene degradation (anaerobic) 5 4 1
ferrichrome A biosynthesis 5 3 1
(S)-propane-1,2-diol degradation 5 2 1
L-threonine degradation I 6 4 1
methanogenesis from acetate 6 2 1
superpathway of taurine degradation 6 2 1
superpathway of sulfolactate degradation 6 2 1
L-glutamate degradation XI (reductive Stickland reaction) 7 3 1
acetyl-CoA fermentation to butanoate 7 3 1
4-aminobutanoate degradation V 7 2 1
superpathway of ornithine degradation 8 7 1
lactate fermentation to acetate, CO2 and hydrogen (Desulfovibrionales) 8 3 1
folate transformations III (E. coli) 9 9 1
superpathway of Clostridium acetobutylicum acidogenic fermentation 9 5 1
superpathway of fermentation (Chlamydomonas reinhardtii) 9 5 1
superpathway of L-alanine fermentation (Stickland reaction) 9 4 1
superpathway of tetrahydrofolate biosynthesis 10 8 1
L-glutamate degradation V (via hydroxyglutarate) 10 6 1
L-lysine fermentation to acetate and butanoate 10 4 1
folate transformations II (plants) 11 10 1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation 11 9 1
gallate degradation III (anaerobic) 11 3 1
superpathway of tetrahydrofolate biosynthesis and salvage 12 10 1
superpathway of L-arginine and L-ornithine degradation 13 11 1
(S)-lactate fermentation to propanoate, acetate and hydrogen 13 4 1
mixed acid fermentation 16 12 1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation 17 7 1
heterolactic fermentation 18 15 1
superpathway of L-threonine metabolism 18 13 1
hexitol fermentation to lactate, formate, ethanol and acetate 19 14 1
methylaspartate cycle 19 9 1
superpathway of methanogenesis 21 2 1
superpathway of N-acetylneuraminate degradation 22 13 1
purine nucleobases degradation II (anaerobic) 24 16 1
superpathway of L-lysine degradation 43 19 1
superpathway of chorismate metabolism 59 43 1