Experiment set2S286 for Desulfovibrio vulgaris Hildenborough JW710

Compare to:

MoYLS4 with Sodium Chlorate 6.25 mM

Group: stress
Media: MoYLS4 + Sodium Chlorate (6.25 mM), pH=7.2
Culturing: DvH_JW710, 24 deep-well microplate, Anaerobic, at 30 (C), shaken=0 rpm
By: Valentine on 4/18/2016
Media components: 1 g/L Yeast Extract, 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, 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, Thauer's vitamin mix (0.01 mg/L Pyridoxine HCl, 0.005 mg/L 4-Aminobenzoic acid, 0.005 mg/L Lipoic acid, 0.005 mg/L Nicotinic Acid, 0.005 mg/L Riboflavin, 0.005 mg/L Thiamine HCl, 0.005 mg/L calcium pantothenate, 0.002 mg/L biotin, 0.002 mg/L Folic Acid, 0.0001 mg/L Cyanocobalamin, 0.2 mg/L Choline chloride)

Specific Phenotypes

For 36 genes in this experiment

For stress Sodium Chlorate in Desulfovibrio vulgaris Hildenborough JW710

For stress Sodium Chlorate across organisms

SEED Subsystems

Subsystem #Specific
Molybdenum cofactor biosynthesis 7
Type IV pilus 5
Anaerobic respiratory reductases 4
ABC transporter tungstate (TC 3.A.1.6.2) 3
Dihydroxyacetone kinases 2
H2:CoM-S-S-HTP oxidoreductase 2
Methanogenesis 2
Calvin-Benson cycle 1
Entner-Doudoroff Pathway 1
Glycolysis and Gluconeogenesis 1
Hydantoin metabolism 1
Hydrogenases 1
Proteasome bacterial 1
Proteolysis in bacteria, ATP-dependent 1
Pyridoxin (Vitamin B6) Biosynthesis 1
Redox-dependent regulation of nucleus processes 1
Zinc resistance 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
coenzyme B/coenzyme M regeneration IV (H2-dependent) 1 1 1
glycerol degradation V 2 2 1
coenzyme B/coenzyme M regeneration I (methanophenazine-dependent) 4 1 1
creatinine degradation II 5 1 1
pyridoxal 5'-phosphate biosynthesis I 7 5 1
sucrose biosynthesis I (from photosynthesis) 9 7 1
Entner-Doudoroff pathway I 9 6 1
glycolysis IV 10 8 1
glycolysis II (from fructose 6-phosphate) 11 10 1
glycolysis III (from glucose) 11 10 1
glycolysis VI (from fructose) 11 8 1
homolactic fermentation 12 11 1
formaldehyde assimilation III (dihydroxyacetone cycle) 12 10 1
gluconeogenesis III 12 9 1
superpathway of pyridoxal 5'-phosphate biosynthesis and salvage 12 9 1
glycolysis I (from glucose 6-phosphate) 13 11 1
gluconeogenesis I 13 10 1
Bifidobacterium shunt 15 13 1
glycerol degradation to butanol 16 9 1
superpathway of glycolysis and the Entner-Doudoroff pathway 17 12 1
superpathway of glucose and xylose degradation 17 12 1
heterolactic fermentation 18 13 1
superpathway of hexitol degradation (bacteria) 18 11 1
hexitol fermentation to lactate, formate, ethanol and acetate 19 16 1
superpathway of anaerobic sucrose degradation 19 15 1
superpathway of N-acetylneuraminate degradation 22 15 1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle 22 14 1
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass 26 18 1