Experiment set5IT006 for Dechlorosoma suillum PS

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ALP with copper (II) chloride dihydrate 0.6 mM

Group: stress
Media: ALP_richB + copper (II) chloride dihydrate (0.6 mM)
Culturing: PS_ML1, 48 well microplate; Tecan Infinite F200, Aerobic, at 25 (C), shaken=orbital
By: Mark on 4/20/2015
Media components: 0.97 g/L Sodium phosphate dibasic heptahydrate, 0.1 g/L Potassium Chloride, 0.25 g/L Ammonium chloride, 40 mM Sodium D,L-Lactate, 1.1 g/L Sodium pyruvate, 0.8203 g/L Sodium acetate, 2 g/L Yeast Extract, 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: 1212 B5,B6

Specific Phenotypes

For 37 genes in this experiment

For stress copper (II) chloride dihydrate in Dechlorosoma suillum PS

For stress copper (II) chloride dihydrate across organisms

SEED Subsystems

Subsystem #Specific
Methionine Biosynthesis 4
Methionine Degradation 3
Formate dehydrogenase 2
Formate hydrogenase 2
Ammonia assimilation 1
Bacterial Chemotaxis 1
Central meta-cleavage pathway of aromatic compound degradation 1
Cyanophycin Metabolism 1
DNA-replication 1
Flagellar motility 1
Glutathione-regulated potassium-efflux system and associated functions 1
Glycerol and Glycerol-3-phosphate Uptake and Utilization 1
Hfl operon 1
Ribosomal protein S12p Asp methylthiotransferase 1
Staphylococcal pathogenicity islands SaPI 1
Thioredoxin-disulfide reductase 1
Threonine and Homoserine Biosynthesis 1
Transport of Zinc 1
Two-component regulatory systems in Campylobacter 1
Universal GTPases 1
tRNA processing 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
formate oxidation to CO2 1 1 1
cyanophycin metabolism 6 4 4
L-threonine biosynthesis 2 2 1
nitrate reduction III (dissimilatory) 2 1 1
formate to trimethylamine N-oxide electron transfer 2 1 1
formate to dimethyl sulfoxide electron transfer 2 1 1
CDP-4-dehydro-3,6-dideoxy-D-glucose biosynthesis 3 3 1
formate to nitrite electron transfer 3 1 1
oxalate degradation VI 4 1 1
oxalate degradation III 5 1 1
superpathway of L-threonine biosynthesis 6 6 1
L-methionine biosynthesis II 6 4 1
superpathway of CDP-glucose-derived O-antigen building blocks biosynthesis 8 3 1
superpathway of C1 compounds oxidation to CO2 12 2 1
superpathway of L-isoleucine biosynthesis I 13 13 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II 15 12 1
purine nucleobases degradation I (anaerobic) 15 5 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 15 1
purine nucleobases degradation II (anaerobic) 24 10 1
aspartate superpathway 25 22 1