Experiment set4IT071 for Acidovorax sp. GW101-3H11

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L-Histidine nitrogen source

Group: nitrogen source
Media: RCH2_defined_Glucose_noNitrogen + L-Histidine (20 mM), pH=7
Culturing: acidovorax_3H11_ML3a, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
Growth: about 5.5 generations
By: Mark on 6/10/2015
Media components: 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM D-Glucose, 30 mM PIPES sesquisodium salt, Wolfe's mineral mix (0.03 g/L Magnesium Sulfate Heptahydrate, 0.015 g/L Nitrilotriacetic acid, 0.01 g/L Sodium Chloride, 0.005 g/L Manganese (II) sulfate monohydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc sulfate heptahydrate, 0.001 g/L Calcium chloride dihydrate, 0.001 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.0002 g/L Aluminum potassium sulfate dodecahydrate, 0.0001 g/L Copper (II) sulfate pentahydrate, 0.0001 g/L Boric Acid, 0.0001 g/L Sodium Molybdate Dihydrate, 0.003 mg/L Sodium selenite pentahydrate), Wolfe's vitamin mix (0.1 mg/L Pyridoxine HCl, 0.05 mg/L 4-Aminobenzoic acid, 0.05 mg/L Lipoic acid, 0.05 mg/L Nicotinic Acid, 0.05 mg/L Riboflavin, 0.05 mg/L Thiamine HCl, 0.05 mg/L calcium pantothenate, 0.02 mg/L biotin, 0.02 mg/L Folic Acid, 0.001 mg/L Cyanocobalamin)
Growth plate: Nplate1 A2

Specific Phenotypes

For 16 genes in this experiment

For nitrogen source L-Histidine in Acidovorax sp. GW101-3H11

For nitrogen source L-Histidine across organisms

SEED Subsystems

Subsystem #Specific
Histidine Degradation 5
Methionine Biosynthesis 2
Coenzyme B12 biosynthesis 1
Homogentisate pathway of aromatic compound degradation 1
Thiamin biosynthesis 1
Urea decomposition 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-histidine degradation II 5 5 5
L-histidine degradation I 4 3 3
L-histidine degradation III 6 4 3
L-histidine degradation VI 8 7 3
L-methionine salvage from L-homocysteine 3 1 1
L-methionine biosynthesis III 4 4 1
L-methionine biosynthesis I 5 3 1
superpathway of L-homoserine and L-methionine biosynthesis 8 6 1
superpathway of L-methionine biosynthesis (transsulfuration) 9 7 1
folate transformations III (E. coli) 9 7 1
superpathway of S-adenosyl-L-methionine biosynthesis 9 7 1
folate transformations II (plants) 11 8 1
superpathway of L-methionine biosynthesis (by sulfhydrylation) 12 12 1
folate transformations I 13 7 1
superpathway of L-methionine salvage and degradation 16 7 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 16 1
aspartate superpathway 25 22 1