Experiment set6IT040 for Dechlorosoma suillum PS

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Sodium propionate carbon source

Group: carbon source
Media: ALP_defined_noC + Sodium propionate (20 mM), pH=7
Culturing: PS_ML1, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
By: Mark on 4/20/2015
Media components: 0.49 g/L Sodium phosphate monobasic monohydrate, 0.97 g/L Potassium phosphate dibasic, 0.1 g/L Potassium Chloride, 0.25 g/L Ammonium chloride, 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 8 genes in this experiment

For carbon source Sodium propionate in Dechlorosoma suillum PS

For carbon source Sodium propionate across organisms

SEED Subsystems

Subsystem #Specific
Propionyl-CoA to Succinyl-CoA Module 3
Serine-glyoxylate cycle 2
Branched-Chain Amino Acid Biosynthesis 1
Cobalamin synthesis 1
Coenzyme B12 biosynthesis 1
Leucine Biosynthesis 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
propanoyl CoA degradation I 3 3 2
2-oxobutanoate degradation I 4 3 2
adenosylcobalamin biosynthesis from adenosylcobinamide-GDP I 3 3 1
5-hydroxybenzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP 3 3 1
benzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP 3 3 1
5-methoxybenzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP 3 3 1
5-methylbenzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP 3 3 1
adeninyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP 3 3 1
5-methoxy-6-methylbenzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP 3 3 1
2-methyladeninyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP 3 3 1
conversion of succinate to propanoate 3 2 1
phenyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP 3 2 1
4-methylphenyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP 3 2 1
biotin-carboxyl carrier protein assembly 4 4 1
adenosylcobalamin biosynthesis from adenosylcobinamide-GDP II 4 2 1
3-hydroxypropanoate cycle 13 7 3
superpathway of adenosylcobalamin salvage from cobinamide II 9 8 2
anaerobic energy metabolism (invertebrates, mitochondrial) 10 7 2
adenosylcobinamide-GDP biosynthesis from cobyrinate a,c-diamide 6 6 1
L-leucine biosynthesis 6 6 1
adenosylcobinamide-GDP salvage from cobinamide II 6 5 1
3-hydroxypropanoate/4-hydroxybutanate cycle 18 10 3
superpathway of the 3-hydroxypropanoate cycle 18 7 3
3-methylbutanol biosynthesis (engineered) 7 6 1
pyruvate fermentation to propanoate I 7 4 1
superpathway of adenosylcobalamin salvage from cobinamide I 8 8 1
superpathway of L-methionine salvage and degradation 16 9 2
superpathway of anaerobic energy metabolism (invertebrates) 17 14 2
methylaspartate cycle 19 11 2
L-glutamate degradation VIII (to propanoate) 11 4 1
(S)-lactate fermentation to propanoate, acetate and hydrogen 13 7 1
glyoxylate assimilation 13 4 1
crotonyl-CoA/ethylmalonyl-CoA/hydroxybutyryl-CoA cycle (engineered) 14 3 1
adenosylcobalamin biosynthesis II (aerobic) 33 27 2
superpathway of branched chain amino acid biosynthesis 17 17 1
adenosylcobalamin biosynthesis I (anaerobic) 36 29 2
mycolate biosynthesis 205 15 1
superpathway of mycolate biosynthesis 239 16 1