Experiment set3IT090 for Dyella japonica UNC79MFTsu3.2

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L-Leucine nitrogen source

Group: nitrogen source
Media: RCH2_defined_Glucose_noNitrogen + L-Leucine (20 mM), pH=7
Culturing: Dyella79_ML3, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
Growth: about 3.7 generations
By: Adam on 17-May-17
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: 1767 C4

Specific Phenotypes

For 2 genes in this experiment

For nitrogen source L-Leucine in Dyella japonica UNC79MFTsu3.2

For nitrogen source L-Leucine across organisms

SEED Subsystems

Subsystem #Specific
Pyruvate Alanine Serine Interconversions 2
Alanine biosynthesis 1
Branched-Chain Amino Acid Biosynthesis 1
Glycine and Serine Utilization 1
Isoleucine degradation 1
Leucine Biosynthesis 1
Leucine Degradation and HMG-CoA Metabolism 1
Valine degradation 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-alanine biosynthesis I 2 2 1
L-phenylalanine biosynthesis I 3 3 1
L-isoleucine degradation II 3 2 1
L-leucine degradation III 3 2 1
L-valine degradation II 3 2 1
L-isoleucine biosynthesis V 3 2 1
L-leucine degradation V (oxidative Stickland reaction) 3 1 1
L-valine degradation III (oxidative Stickland reaction) 3 1 1
L-phenylalanine degradation II (anaerobic) 3 1 1
L-isoleucine degradation III (oxidative Stickland reaction) 3 1 1
L-valine biosynthesis 4 4 1
superpathway of L-alanine biosynthesis 4 4 1
L-phenylalanine degradation III 4 2 1
L-leucine degradation IV (reductive Stickland reaction) 5 1 1
L-phenylalanine degradation VI (reductive Stickland reaction) 5 1 1
superpathway of branched chain amino acid biosynthesis 17 17 3
L-leucine biosynthesis 6 6 1
L-leucine degradation I 6 5 1
L-isoleucine biosynthesis IV 6 4 1
L-isoleucine degradation I 6 4 1
L-isoleucine biosynthesis I (from threonine) 7 7 1
L-isoleucine biosynthesis III 7 4 1
L-isoleucine biosynthesis II 8 4 1
L-valine degradation I 8 3 1
L-phenylalanine degradation IV (mammalian, via side chain) 9 3 1
superpathway of L-phenylalanine biosynthesis 10 10 1
superpathway of L-isoleucine biosynthesis I 13 13 1
superpathway of aromatic amino acid biosynthesis 18 17 1
superpathway of L-threonine metabolism 18 13 1
anaerobic aromatic compound degradation (Thauera aromatica) 27 1 1
odd iso-branched-chain fatty acid biosynthesis 34 30 1
even iso-branched-chain fatty acid biosynthesis 34 30 1
anteiso-branched-chain fatty acid biosynthesis 34 30 1
superpathway of chorismate metabolism 59 38 1