Experiment set14IT077 for Desulfovibrio vulgaris Hildenborough JW710

MoLS4 with 2-oxobutyrate 10mM

Group: nutrient
Media: MoLS4 + 2-oxobutyric acid sodium salt (10 mM), pH=7.2
Culturing: DvH_JW710, 24 deep-well microplate, Anaerobic, at 30 (C), shaken=0 rpm
By: Valentine on 7/7/2017
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), 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 4 genes in this experiment

For nutrient 2-oxobutyric acid sodium salt in Desulfovibrio vulgaris Hildenborough JW710

For nutrient 2-oxobutyric acid sodium salt across organisms

SEED Subsystems

Subsystem	#Specific
Acetoin, butanediol metabolism	1
Bacterial Cell Division	1
Branched-Chain Amino Acid Biosynthesis	1
Lactate utilization	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Butanoate metabolism
• Valine, leucine and isoleucine biosynthesis
• C5-Branched dibasic acid metabolism
• Pantothenate and CoA biosynthesis
• Biosynthesis of alkaloids derived from histidine and purine

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
pyruvate fermentation to (R)-acetoin II	2	1	1
pyruvate fermentation to (S)-acetoin	3	2	1
pyruvate fermentation to (R)-acetoin I	3	2	1
L-valine biosynthesis	4	4	1
pyruvate fermentation to isobutanol (engineered)	5	4	1
superpathway of (R,R)-butanediol biosynthesis	5	2	1
L-isoleucine biosynthesis IV	6	4	1
superpathway of 2,3-butanediol biosynthesis	6	2	1
L-isoleucine biosynthesis I (from threonine)	7	6	1
L-isoleucine biosynthesis III	7	4	1
pyruvate fermentation to butanoate	7	3	1
L-isoleucine biosynthesis II	8	6	1
superpathway of branched chain amino acid biosynthesis	17	16	2
superpathway of Clostridium acetobutylicum acidogenic fermentation	9	5	1
L-glutamate degradation VII (to butanoate)	12	4	1
superpathway of L-isoleucine biosynthesis I	13	12	1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation	17	8	1
superpathway of L-threonine metabolism	18	13	1