Experiment set4IT072 for Acidovorax sp. GW101-3H11

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L-Serine nitrogen source

Group: nitrogen source
Media: RCH2_defined_Glucose_noNitrogen + L-Serine (20 mM), pH=7
Culturing: acidovorax_3H11_ML3a, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
Growth: about 3.6 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 A6

Specific Phenotypes

For 3 genes in this experiment

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

For nitrogen source L-Serine across organisms

SEED Subsystems

Subsystem #Specific
Glycine and Serine Utilization 1
Methionine Biosynthesis 1
Pyruvate Alanine Serine Interconversions 1
Threonine and Homoserine Biosynthesis 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-serine degradation 3 3 3
D-serine degradation 3 3 2
L-cysteine degradation II 3 2 2
L-tryptophan degradation II (via pyruvate) 3 2 2
glycine betaine degradation III 7 4 3
felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis 5 2 2
glycine betaine degradation I 8 5 3
L-homoserine biosynthesis 3 3 1
L-methionine biosynthesis II 6 5 2
glycine degradation 3 2 1
L-mimosine degradation 8 4 2
glutathione-mediated detoxification I 8 3 2
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II 15 13 3
superpathway of L-threonine biosynthesis 6 6 1
superpathway of L-homoserine and L-methionine biosynthesis 8 6 1
purine nucleobases degradation II (anaerobic) 24 15 3
superpathway of S-adenosyl-L-methionine biosynthesis 9 7 1
superpathway of L-methionine biosynthesis (transsulfuration) 9 7 1
superpathway of L-methionine biosynthesis (by sulfhydrylation) 12 12 1
superpathway of L-isoleucine biosynthesis I 13 13 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 16 1
aspartate superpathway 25 22 1