Experiment set2IT061 for Pedobacter sp. GW460-11-11-14-LB5

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D-Galactose carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + D-Galactose (20 mM), pH=7
Culturing: Pedo557_ML3, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
Growth: about 4.9 generations
By: Adam on 16-May-17
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 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: 1742 A5

Specific Phenotypes

For 5 genes in this experiment

For carbon source D-Galactose in Pedobacter sp. GW460-11-11-14-LB5

For carbon source D-Galactose across organisms

SEED Subsystems

Subsystem #Specific
Lactose and Galactose Uptake and Utilization 2
Glycerol and Glycerol-3-phosphate Uptake and Utilization 1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria 1
Respiratory dehydrogenases 1 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
D-galactose detoxification 3 3 2
glycerophosphodiester degradation 2 2 1
glycerol-3-phosphate shuttle 2 2 1
glycerol-3-phosphate to cytochrome bo oxidase electron transfer 2 1 1
nitrate reduction IX (dissimilatory) 2 1 1
glycerol 3-phosphate to cytochrome aa3 oxidase electron transfer 2 1 1
glycerol-3-phosphate to hydrogen peroxide electron transport 2 1 1
glycerol-3-phosphate to fumarate electron transfer 2 1 1
stachyose degradation 7 6 3
D-galactose degradation I (Leloir pathway) 5 5 2
glycerol degradation I 3 2 1
sn-glycerol 3-phosphate anaerobic respiration 3 1 1
glycerol and glycerophosphodiester degradation 4 3 1