Experiment set2IT052 for Magnetospirillum magneticum AMB-1

30_an_nonmag_1

Group: magnetic pulldown
Media: MG minimal media_noIron + Iron (30 μM)
Culturing: Magneto_ML2, tube, Anaerobic, at 30 (C)
By: Hayley on 13-Mar-2019
Media components: 0.035 g/L L-ascorbic acid, 0.07 g/L Sodium acetate, 0.1 g/L Sodium thiosulfate, 0.12 g/L Sodium nitrate, 0.37 g/L Succinic Acid, 0.37 g/L L-(+)-tartaric acid, 0.68 g/L Potassium phosphate monobasic, Modified Wolfe's Minerals (0.0075 g/L Nitrilotriacetic acid, 0.007325 g/L Magnesium sulfate, 0.0025 g/L Manganese (II) sulfate monohydrate, 0.005 g/L Sodium Chloride, 0.0005 g/L Cobalt chloride hexahydrate, 0.0005 g/L Calcium chloride dihydrate, 0.0005 g/L Zinc sulfate heptahydrate, 0.0001 g/L Aluminum potassium sulfate dodecahydrate, 5e-05 g/L Boric Acid, 5e-05 g/L Sodium Molybdate Dihydrate), 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 1 genes in this experiment

For magnetic pulldown Iron in Magnetospirillum magneticum AMB-1

For magnetic pulldown Iron across organisms

SEED Subsystems

Subsystem	#Specific
D-Tagatose and Galactitol Utilization	1
Glycolysis and Gluconeogenesis	1
Glycolysis and Gluconeogenesis, including Archaeal enzymes	1
N-Acetyl-Galactosamine and Galactosamine Utilization	1

Metabolic Maps

Color code by fitness: see overview map or list of maps.

Maps containing gene(s) with specific phenotypes:

• Glycolysis / Gluconeogenesis
• Pentose phosphate pathway
• Fructose and mannose metabolism
• Galactose metabolism
• Biosynthesis of phenylpropanoids
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of alkaloids derived from terpenoid and polyketide
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
sedoheptulose bisphosphate bypass	2	2	1
D-galactosamine and N-acetyl-D-galactosamine degradation	4	1	1
galactitol degradation	5	2	1
lactose degradation I	5	1	1
N-acetyl-D-galactosamine degradation	5	1	1
formaldehyde assimilation II (assimilatory RuMP Cycle)	9	7	1
superpathway of hexitol degradation (bacteria)	18	11	2
1,3-propanediol biosynthesis (engineered)	9	4	1
glycolysis IV	10	9	1
glycolysis III (from glucose)	11	10	1
glycolysis II (from fructose 6-phosphate)	11	9	1
homolactic fermentation	12	11	1
glycolysis I (from glucose 6-phosphate)	13	10	1
superpathway of glycolysis and the Entner-Doudoroff pathway	17	10	1
superpathway of anaerobic sucrose degradation	19	14	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	12	1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	20	1
superpathway of N-acetylneuraminate degradation	22	12	1
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	20	1