Experiment set7IT090 for Desulfovibrio vulgaris Hildenborough JW710

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MoLS4 with L-Alanine nitrogen source

Group: nitrogen source
Media: MoLS4_no_ammonium + L-Alanine (20 mM), pH=7.2
Culturing: DvH_JW710, 24 deep-well microplate, Anaerobic, at 30 (C), shaken=0 rpm
By: Valentine on 2/10/2017
Media components: 30 mM Sodium sulfate, 60 mM Sodium D,L-Lactate, 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 39 genes in this experiment

For nitrogen source L-Alanine in Desulfovibrio vulgaris Hildenborough JW710

For nitrogen source L-Alanine across organisms

SEED Subsystems

Subsystem #Specific
Ammonia assimilation 4
Bacterial Chemotaxis 2
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 2
Serine-glyoxylate cycle 2
Acetoin, butanediol metabolism 1
Branched-Chain Amino Acid Biosynthesis 1
Cysteine Biosynthesis 1
Folate Biosynthesis 1
Molybdenum cofactor biosynthesis 1
Multidrug Resistance, Tripartite Systems Found in Gram Negative Bacteria 1
O-Methyl Phosphoramidate Capsule Modification in Campylobacter 1
One-carbon metabolism by tetrahydropterines 1
Transport of Zinc 1
Two-component regulatory systems in Campylobacter 1
cAMP signaling in bacteria 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
L-glutamate biosynthesis I 2 2 2
L-glutamine degradation II 1 1 1
L-glutamate biosynthesis IV 1 1 1
L-glutamine degradation I 1 1 1
ammonia assimilation cycle III 3 3 2
ammonia assimilation cycle I 2 2 1
sulfate activation for sulfonation 2 2 1
pyruvate fermentation to (R)-acetoin II 2 1 1
L-glutamate and L-glutamine biosynthesis 7 4 3
superpathway of ammonia assimilation (plants) 3 2 1
pyruvate fermentation to (S)-acetoin 3 2 1
pyruvate fermentation to (R)-acetoin I 3 2 1
L-valine biosynthesis 4 4 1
L-asparagine biosynthesis III (tRNA-dependent) 4 3 1
glutaminyl-tRNAgln biosynthesis via transamidation 4 3 1
assimilatory sulfate reduction I 4 3 1
assimilatory sulfate reduction IV 4 3 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
CMP-8-amino-3,8-dideoxy-D-manno-octulosonate biosynthesis 7 5 1
L-isoleucine biosynthesis III 7 4 1
L-isoleucine biosynthesis II 8 6 1
L-citrulline biosynthesis 8 5 1
superpathway of branched chain amino acid biosynthesis 17 16 2
superpathway of sulfate assimilation and cysteine biosynthesis 9 7 1
folate transformations III (E. coli) 9 5 1
superpathway of sulfur amino acid biosynthesis (Saccharomyces cerevisiae) 10 3 1
folate transformations II (plants) 11 5 1
superpathway of L-methionine biosynthesis (by sulfhydrylation) 12 9 1
superpathway of L-citrulline metabolism 12 7 1
superpathway of L-isoleucine biosynthesis I 13 12 1
folate transformations I 13 7 1
superpathway of L-threonine metabolism 18 13 1