Experiment set10H33 for Pseudomonas stutzeri RCH2

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Ethanol carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + Ethanol (20 mM), pH=7.2
Culturing: psRCH2_ML7c, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 4.0 generations
By: Kelly on 2/24/2014
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 33 genes in this experiment

For carbon source Ethanol in Pseudomonas stutzeri RCH2

For carbon source Ethanol across organisms

SEED Subsystems

Subsystem #Specific
Coenzyme PQQ synthesis 3
Pyrroloquinoline Quinone biosynthesis 3
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate 3
Ethanolamine utilization 2
Fermentations: Lactate 2
Fermentations: Mixed acid 2
Malonate decarboxylase 2
Respiratory dehydrogenases 1 2
Threonine anaerobic catabolism gene cluster 2
Colanic acid biosynthesis 1
Entner-Doudoroff Pathway 1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria 1
MLST 1
Methylglyoxal Metabolism 1
Propanediol utilization 1
Rhamnose containing glycans 1
Serine-glyoxylate cycle 1
Soluble cytochromes and functionally related electron carriers 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
acetate and ATP formation from acetyl-CoA I 2 2 2
superpathway of acetate utilization and formation 3 3 2
pyruvate fermentation to acetate II 3 3 2
malonate degradation I (biotin-independent) 3 3 2
pyruvate fermentation to acetate VII 3 2 2
pyruvate fermentation to acetate IV 3 2 2
pyruvate fermentation to acetate I 3 2 2
pyruvate fermentation to acetate and (S)-lactate I 4 4 2
putrescine degradation V 2 2 1
pyruvate fermentation to acetate and lactate II 4 3 2
putrescine degradation I 2 1 1
phenylethylamine degradation I 2 1 1
glycine degradation (reductive Stickland reaction) 2 1 1
phenylethylamine degradation II 2 1 1
sulfoacetaldehyde degradation I 2 1 1
ethylene glycol degradation 2 1 1
phenylethanol degradation 2 1 1
ethanolamine utilization 5 5 2
acetylene degradation (anaerobic) 5 4 2
(S)-propane-1,2-diol degradation 5 3 2
ethanol degradation IV 3 3 1
ethanol degradation II 3 3 1
fatty acid biosynthesis initiation (type II) 3 3 1
L-threonine degradation I 6 5 2
hypotaurine degradation 3 2 1
L-phenylalanine degradation II (anaerobic) 3 2 1
putrescine degradation IV 3 2 1
ethanol degradation III 3 2 1
methanogenesis from acetate 6 2 2
histamine degradation 3 1 1
styrene degradation 3 1 1
acetyl-CoA fermentation to butanoate 7 4 2
pyrroloquinoline quinone biosynthesis 7 4 2
phytol degradation 4 3 1
fatty acid α-oxidation I (plants) 4 2 1
fatty acid biosynthesis initiation (mitochondria) 4 2 1
lactate fermentation to acetate, CO2 and hydrogen (Desulfovibrionales) 8 3 2
fatty acid biosynthesis initiation (plant mitochondria) 4 1 1
putrescine degradation III 4 1 1
L-tryptophan degradation X (mammalian, via tryptamine) 4 1 1
D-arabinose degradation II 4 1 1
sulfolactate degradation II 4 1 1
superpathway of Clostridium acetobutylicum acidogenic fermentation 9 5 2
superpathway of fermentation (Chlamydomonas reinhardtii) 9 5 2
superpathway of L-alanine fermentation (Stickland reaction) 9 4 2
superpathway of fatty acid biosynthesis initiation 5 4 1
octane oxidation 5 3 1
mitochondrial NADPH production (yeast) 5 3 1
sphingosine and sphingosine-1-phosphate metabolism 10 4 2
L-lysine fermentation to acetate and butanoate 10 3 2
dopamine degradation 5 1 1
gallate degradation III (anaerobic) 11 5 2
glyoxylate cycle 6 5 1
3-methyl-branched fatty acid α-oxidation 6 3 1
superpathway of sulfolactate degradation 6 2 1
superpathway of taurine degradation 6 1 1
alkane oxidation 6 1 1
(S)-lactate fermentation to propanoate, acetate and hydrogen 13 5 2
noradrenaline and adrenaline degradation 13 4 2
superpathway of glycol metabolism and degradation 7 5 1
serotonin degradation 7 3 1
ceramide degradation by α-oxidation 7 2 1
pederin biosynthesis 14 2 2
limonene degradation IV (anaerobic) 7 1 1
mixed acid fermentation 16 12 2
superpathway of ornithine degradation 8 6 1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) 8 5 1
ceramide and sphingolipid recycling and degradation (yeast) 16 4 2
aromatic biogenic amine degradation (bacteria) 8 1 1
Salmonella enterica serotype O:8 O antigen biosynthesis 8 1 1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation 17 8 2
superpathway of L-threonine metabolism 18 13 2
Entner-Doudoroff pathway II (non-phosphorylative) 9 5 1
reductive glycine pathway of autotrophic CO2 fixation 9 5 1
L-phenylalanine degradation IV (mammalian, via side chain) 9 3 1
hexitol fermentation to lactate, formate, ethanol and acetate 19 16 2
bryostatin biosynthesis 19 2 2
superpathway of methanogenesis 21 2 2
superpathway of N-acetylneuraminate degradation 22 14 2
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation 11 6 1
superpathway of phenylethylamine degradation 11 4 1
mycobactin biosynthesis 11 1 1
superpathway of glyoxylate bypass and TCA 12 11 1
purine nucleobases degradation II (anaerobic) 24 16 2
superpathway of L-arginine and L-ornithine degradation 13 8 1
superpathway of glyoxylate cycle and fatty acid degradation 14 11 1
Bifidobacterium shunt 15 15 1
purine nucleobases degradation I (anaerobic) 15 6 1
superpathway of fatty acid biosynthesis I (E. coli) 16 15 1
heterolactic fermentation 18 15 1
superpathway of L-lysine degradation 43 11 2
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass 26 23 1
mupirocin biosynthesis 26 2 1
anaerobic aromatic compound degradation (Thauera aromatica) 27 3 1
corallopyronin A biosynthesis 30 2 1
superpathway of pentose and pentitol degradation 42 7 1
superpathway of fatty acid biosynthesis II (plant) 43 38 1
superpathway of fatty acids biosynthesis (E. coli) 53 51 1