Experiment set3H35 for Phaeobacter inhibens DSM 17395

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Potassium acetate carbon source

Group: carbon source
Media: DinoMM_noCarbon + Potassium acetate (20 mM), pH=7
Culturing: Phaeo_ML1, 48 well microplate; Tecan Infinite F200, Aerobic, at 25 (C), shaken=orbital
By: Jordan on 8/5/2013
Media components: 20 g/L Sea salts, 0.3 g/L Ammonium Sulfate, 0.1 g/L Potassium phosphate monobasic, Wolfe's mineral mix (0.003 g/L Magnesium Sulfate Heptahydrate, 0.0015 g/L Nitrilotriacetic acid, 0.001 g/L Sodium Chloride, 0.0005 g/L Manganese (II) sulfate monohydrate, 0.0001 g/L Cobalt chloride hexahydrate, 0.0001 g/L Zinc sulfate heptahydrate, 0.0001 g/L Calcium chloride dihydrate, 0.0001 g/L Iron (II) sulfate heptahydrate, 2.5e-05 g/L Nickel (II) chloride hexahydrate, 2e-05 g/L Aluminum potassium sulfate dodecahydrate, 1e-05 g/L Copper (II) sulfate pentahydrate, 1e-05 g/L Boric Acid, 1e-05 g/L Sodium Molybdate Dihydrate, 0.0003 mg/L Sodium selenite pentahydrate), Wolfe's vitamin mix (0.05 mg/L Pyridoxine HCl, 0.025 mg/L 4-Aminobenzoic acid, 0.025 mg/L Lipoic acid, 0.025 mg/L Nicotinic Acid, 0.025 mg/L Riboflavin, 0.025 mg/L Thiamine HCl, 0.025 mg/L calcium pantothenate, 0.01 mg/L biotin, 0.01 mg/L Folic Acid, 0.0005 mg/L Cyanocobalamin)
Growth plate: 621 B1,B2

Specific Phenotypes

For 15 genes in this experiment

For carbon source Potassium acetate in Phaeobacter inhibens DSM 17395

For carbon source Potassium acetate across organisms

SEED Subsystems

Subsystem #Specific
Widespread colonization island 2
Flagellum 1
Ketoisovalerate oxidoreductase 1
Photorespiration (oxidative C2 cycle) 1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate 1
Serine-glyoxylate cycle 1
cAMP signaling in bacteria 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 III 1 1 1
acetate conversion to acetyl-CoA 1 1 1
ethylmalonyl-CoA pathway 11 7 4
superpathway of acetate utilization and formation 3 3 1
ethanol degradation II 3 3 1
ethanol degradation IV 3 3 1
ethanol degradation III 3 2 1
L-isoleucine biosynthesis V 3 2 1
crotonyl-CoA/ethylmalonyl-CoA/hydroxybutyryl-CoA cycle (engineered) 14 7 4
(2S)-ethylmalonyl-CoA biosynthesis 4 3 1
chitin deacetylation 4 2 1
methylaspartate cycle 19 15 4
2-methylcitrate cycle I 5 1 1
β-alanine biosynthesis II 6 4 1
L-isoleucine biosynthesis IV 6 4 1
superpathway of the 3-hydroxypropanoate cycle 18 11 3
superpathway of bitter acids biosynthesis 18 3 3
2-methylcitrate cycle II 6 1 1
colupulone and cohumulone biosynthesis 6 1 1
lupulone and humulone biosynthesis 6 1 1
adlupulone and adhumulone biosynthesis 6 1 1
glyoxylate assimilation 13 7 2
reductive glycine pathway of autotrophic CO2 fixation 9 6 1
cis-geranyl-CoA degradation 9 2 1
superpathway of coenzyme A biosynthesis II (plants) 10 8 1
3-hydroxypropanoate cycle 13 9 1
formaldehyde assimilation I (serine pathway) 13 8 1