Experiment set2H43 for Shewanella amazonensis SB2B

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Minimal media with D-Glucose as carbon source

Group: carbon source
Media: ShewMM_noCarbon + D-Glucose (20 mM), pH=7
Culturing: SB2B_ML5, 48 well microplate; Tecan Infinite F200, Aerobic, at 37 (C), shaken=orbital
By: Jake on 4/15/2013
Media components: 1.5 g/L Ammonium chloride, 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, 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)
Growth plate: 505 A1,A2

Specific Phenotypes

For 11 genes in this experiment

For carbon source D-Glucose in Shewanella amazonensis SB2B

For carbon source D-Glucose across organisms

SEED Subsystems

Subsystem #Specific
Maltose and Maltodextrin Utilization 3
Mannose Metabolism 3
N-Acetyl-Galactosamine and Galactosamine Utilization 3
Beta-Glucoside Metabolism 1
Chitin and N-acetylglucosamine utilization 1
Fructooligosaccharides(FOS) and Raffinose Utilization 1
Lactose and Galactose Uptake and Utilization 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
N-acetylglucosamine degradation II 3 3 2
neolinustatin bioactivation 3 2 2
N-acetylglucosamine degradation I 2 2 1
linustatin bioactivation 4 2 2
linamarin degradation 2 1 1
trehalose degradation VI (periplasmic) 2 1 1
lotaustralin degradation 2 1 1
cellulose degradation II (fungi) 3 1 1
D-galactosamine and N-acetyl-D-galactosamine degradation 4 2 1
chitin derivatives degradation 8 3 2
D-galactose degradation I (Leloir pathway) 5 4 1
N-acetyl-D-galactosamine degradation 5 2 1
coumarin biosynthesis (via 2-coumarate) 5 2 1
superpathway of N-acetylglucosamine, N-acetylmannosamine and N-acetylneuraminate degradation 6 2 1
α-tomatine degradation 6 1 1
peptidoglycan recycling I 14 11 1
firefly bioluminescence 14 2 1
superpathway of N-acetylneuraminate degradation 22 16 1