Experiment set5H18 for Shewanella oneidensis MR-1

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L-Methionine nitrogen source

Group: nitrogen source
Media: ShewMM_noNitrogen + L-Methionine (10 mM), pH=7
Culturing: MR1_ML3, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 3.5 generations
By: Adam on 8/21/2013
Media components: 1.75 g/L Sodium Chloride, 0.61 g/L Magnesium chloride hexahydrate, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM Sodium D,L-Lactate, 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 nitrogen source L-Methionine in Shewanella oneidensis MR-1

For nitrogen source L-Methionine across organisms

SEED Subsystems

Subsystem #Specific
Queuosine-Archaeosine Biosynthesis 2
D-Galacturonate and D-Glucuronate Utilization 1
DNA repair, bacterial MutL-MutS system 1
Flagellum 1
Glutathione: Biosynthesis and gamma-glutamyl cycle 1
Glycogen metabolism 1
Heat shock dnaK gene cluster extended 1
Methionine Degradation 1
Methylcitrate cycle 1
Propionate-CoA to Succinate Module 1
Protein chaperones 1
Utilization of glutathione as a sulphur source 1
ZZ gjo need homes 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-methionine degradation II 3 3 3
glutathione degradation (DUG pathway) 2 2 1
seleno-amino acid detoxification and volatilization I 2 1 1
dimethyl sulfide biosynthesis from methionine 2 1 1
L-threonine degradation I 6 6 2
seleno-amino acid detoxification and volatilization III 3 2 1
L-isoleucine biosynthesis I (from threonine) 7 7 2
glycogen biosynthesis I (from ADP-D-Glucose) 4 4 1
queuosine biosynthesis I (de novo) 4 4 1
preQ0 biosynthesis 4 2 1
hypoglycin biosynthesis 14 4 3
2-methylcitrate cycle I 5 5 1
queuosine biosynthesis III (queuosine salvage) 5 3 1
peptido-conjugates in tissue regeneration biosynthesis 17 6 3
2-methylcitrate cycle II 6 5 1
γ-glutamyl cycle 6 4 1
leukotriene biosynthesis 6 2 1
superpathway of L-isoleucine biosynthesis I 13 13 2
superpathway of branched chain amino acid biosynthesis 17 17 2
superpathway of L-threonine metabolism 18 15 2
superpathway of seleno-compound metabolism 19 8 2
starch biosynthesis 10 6 1