Experiment set16IT087 for Desulfovibrio vulgaris Hildenborough JW710

MoYLS4 with Molybdate 100uM and Tungstate 0.5mM

Group: stress
Media: MoYLS4 + Sodium molybdate (100 ) + Sodium tungstate dihydrate (0.5 mM), pH=7.2
Culturing: DvH_JW710, 24 deep-well microplate, Anaerobic, at 30 (C), shaken=0 rpm
By: Valentine on 11/2/2017
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 35 genes in this experiment

For stress Sodium molybdate in Desulfovibrio vulgaris Hildenborough JW710

For stress Sodium molybdate across organisms

SEED Subsystems

Subsystem	#Specific
ABC transporter alkylphosphonate (TC 3.A.1.9.1)	4
Flagellar motility	2
Flagellum	2
Multidrug Resistance Efflux Pumps	2
Multidrug efflux pump in Campylobacter jejuni (CmeABC operon)	2
Arginine Biosynthesis extended	1
Heat shock dnaK gene cluster extended	1
Hfl operon	1
Molybdenum cofactor biosynthesis	1
Protein chaperones	1
Transport of Molybdenum	1
Transport of Zinc	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Citrate cycle (TCA cycle)
• Urea cycle and metabolism of amino groups
• Lysine degradation
• Arginine and proline metabolism
• Peptidoglycan biosynthesis
• Reductive carboxylate cycle (CO2 fixation)
• Biotin metabolism
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-ornithine biosynthesis I	5	5	1
incomplete reductive TCA cycle	7	6	1
L-arginine biosynthesis I (via L-ornithine)	9	9	1
L-arginine biosynthesis III (via N-acetyl-L-citrulline)	9	8	1
TCA cycle VI (Helicobacter)	9	7	1
TCA cycle V (2-oxoglutarate synthase)	9	7	1
TCA cycle VII (acetate-producers)	9	6	1
reductive TCA cycle I	11	9	1
reductive TCA cycle II	12	7	1
superpathway of arginine and polyamine biosynthesis	17	11	1
Methanobacterium thermoautotrophicum biosynthetic metabolism	56	22	1