Experiment set6IT029 for Desulfovibrio vulgaris Hildenborough JW710

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MoLS4 without vitamins with Casamino acids 0.05%

Group: nutrient
Media: MoLS4_no_vitamins + casamino acids (0.5 mg/mL), pH=7.2
Culturing: DvH_JW710, 24 deep-well microplate, Anaerobic, at 30 (C), shaken=0 rpm
By: Valentine on 12/12/2016
Media components: 30 mM Sodium sulfate, 60 mM Sodium D,L-Lactate, 20 mM Ammonium chloride, 30 mM Tris hydrochloride, 0.12 mM EDTA, 1 mM Sodium sulfide nonahydrate, 8 mM Magnesium chloride hexahydrate, 0.6 mM Calcium chloride, 2 mM Potassium phosphate dibasic, 60 uM Iron (II) chloride tetrahydrate, Desulfovibrio trace elements (15 uM Manganese (II) chloride tetrahydrate, 7.8 uM Cobalt chloride hexahydrate, 9 uM Zinc chloride, 1.26 uM Sodium molybdate, 1.92 uM Boric Acid, 2.28 uM Nickel (II) sulfate hexahydrate, 0.06 uM copper (II) chloride dihydrate, 0.21 uM Sodium selenite pentahydrate, 0.144 uM Sodium tungstate dihydrate)

Specific Phenotypes

For 7 genes in this experiment

SEED Subsystems

Subsystem #Specific
Coenzyme A Biosynthesis 2
Aromatic amino acid degradation 1
Auxin biosynthesis 1
Glycolate, glyoxylate interconversions 1
Photorespiration (oxidative C2 cycle) 1
Pyridoxin (Vitamin B6) 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
phosphopantothenate biosynthesis I 4 4 2
betaxanthin biosynthesis (via dopamine) 2 2 1
glycolate and glyoxylate degradation II 2 2 1
L-dopa degradation II (bacterial) 2 1 1
octopamine biosynthesis 2 1 1
betaxanthin biosynthesis 3 2 1
L-tryptophan degradation VI (via tryptamine) 3 1 1
glycolate and glyoxylate degradation III 3 1 1
salidroside biosynthesis 4 2 1
phosphopantothenate biosynthesis III (archaea) 4 2 1
glycolate and glyoxylate degradation I 4 1 1
catecholamine biosynthesis 4 1 1
L-tryptophan degradation X (mammalian, via tryptamine) 4 1 1
serotonin and melatonin biosynthesis 4 1 1
superpathway of coenzyme A biosynthesis I (bacteria) 9 8 2
superpathway of coenzyme A biosynthesis II (plants) 10 5 2
phenylethanol biosynthesis 5 2 1
hydroxycinnamic acid tyramine amides biosynthesis 5 1 1
(S)-reticuline biosynthesis I 11 3 2
hydroxycinnamic acid serotonin amides biosynthesis 6 1 1
beta-carboline biosynthesis 6 1 1
psilocybin biosynthesis 6 1 1
pyridoxal 5'-phosphate biosynthesis I 7 5 1
superpathway of glycol metabolism and degradation 7 2 1
(S)-reticuline biosynthesis II 7 1 1
methanofuran biosynthesis 8 1 1
photorespiration III 9 6 1
photorespiration I 9 6 1
L-phenylalanine degradation IV (mammalian, via side chain) 9 3 1
photorespiration II 10 6 1
superpathway of pyridoxal 5'-phosphate biosynthesis and salvage 12 9 1
indole-3-acetate biosynthesis II 12 3 1
secologanin and strictosidine biosynthesis 17 1 1
Amaryllidacea alkaloids biosynthesis 26 1 1
superpathway of betalain biosynthesis 27 13 1