Experiment set5IT062 for Sphingomonas koreensis DSMZ 15582

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L-Histidine nitrogen source

Group: nitrogen source
Media: RCH2_defined_Glucose_noNitrogen + L-Histidine (5 mM)
Culturing: korea_ML2, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 6.6 generations
By: Mark on 1/26/2015
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)

Specific Phenotypes

For 23 genes in this experiment

For nitrogen source L-Histidine in Sphingomonas koreensis DSMZ 15582

For nitrogen source L-Histidine across organisms

SEED Subsystems

Subsystem #Specific
Histidine Degradation 4
Bacterial Chemotaxis 2
Flagellar motility 2
Two-component regulatory systems in Campylobacter 2
Bacterial hemoglobins 1
De Novo Purine Biosynthesis 1
Glycerol and Glycerol-3-phosphate Uptake and Utilization 1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria 1
Potassium homeostasis 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 I 4 4 4
L-glutamine degradation I 1 1 1
L-histidine degradation II 5 5 4
tetrahydrofolate salvage from 5,10-methenyltetrahydrofolate 2 2 1
glycerol-3-phosphate shuttle 2 2 1
L-glutamate biosynthesis I 2 2 1
L-histidine degradation III 6 4 3
L-histidine degradation VI 8 7 3
superpathway of 5-aminoimidazole ribonucleotide biosynthesis 6 6 2
ammonia assimilation cycle III 3 3 1
guanosine ribonucleotides de novo biosynthesis 4 4 1
CDP-diacylglycerol biosynthesis II 4 4 1
L-asparagine biosynthesis III (tRNA-dependent) 4 4 1
CDP-diacylglycerol biosynthesis I 4 4 1
glutaminyl-tRNAgln biosynthesis via transamidation 4 4 1
5-aminoimidazole ribonucleotide biosynthesis II 5 5 1
5-aminoimidazole ribonucleotide biosynthesis I 5 5 1
CDP-diacylglycerol biosynthesis III 5 4 1
phosphatidate biosynthesis (yeast) 5 3 1
glucosylglycerol biosynthesis 5 2 1
superpathway of guanosine nucleotides de novo biosynthesis I 6 6 1
phosphatidylglycerol biosynthesis II 6 5 1
phosphatidylglycerol biosynthesis I 6 5 1
L-glutamate and L-glutamine biosynthesis 7 4 1
superpathway of guanosine nucleotides de novo biosynthesis II 8 7 1
L-citrulline biosynthesis 8 6 1
photorespiration III 9 6 1
photorespiration I 9 6 1
1,3-propanediol biosynthesis (engineered) 9 4 1
photorespiration II 10 6 1
superpathway of purine nucleotides de novo biosynthesis I 21 21 2
superpathway of tetrahydrofolate biosynthesis and salvage 12 10 1
superpathway of phospholipid biosynthesis III (E. coli) 12 9 1
superpathway of L-citrulline metabolism 12 8 1
superpathway of purine nucleotides de novo biosynthesis II 26 24 2
superpathway of cardiolipin biosynthesis (bacteria) 13 9 1
superpathway of purine nucleotide salvage 14 11 1
superpathway of histidine, purine, and pyrimidine biosynthesis 46 43 2
superpathway of phospholipid biosynthesis II (plants) 28 9 1