Experiment set6IT091 for Klebsiella michiganensis M5al

LB with Cobalt chloride hexahydrate 0.5 mM

Group: stress
Media: LB + Cobalt chloride hexahydrate (0.5 mM)
Culturing: Koxy_ML2, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Adam on 27-Apr-17
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 1800 A5

Specific Phenotypes

For 26 genes in this experiment

For stress Cobalt chloride hexahydrate in Klebsiella michiganensis M5al

For stress Cobalt chloride hexahydrate across organisms

SEED Subsystems

Subsystem	#Specific
Cysteine Biosynthesis	3
Copper homeostasis: copper tolerance	2
Phosphate metabolism	2
Polyamine Metabolism	2
Acid resistance mechanisms	1
Arginine and Ornithine Degradation	1
Bacterial RNA-metabolizing Zn-dependent hydrolases	1
Biogenesis of c-type cytochromes	1
Campylobacter Iron Metabolism	1
Chorismate Synthesis	1
Common Pathway For Synthesis of Aromatic Compounds (DAHP synthase to chorismate)	1
Conserved gene cluster associated with Met-tRNA formyltransferase	1
Heat shock dnaK gene cluster extended	1
LOS core oligosaccharide biosynthesis	1
Ribonucleotide reduction	1
Ribosome biogenesis bacterial	1
Synechocystis experimental	1
Triacylglycerol metabolism	1
linker unit-arabinogalactan synthesis	1
tRNA processing	1

Metabolic Maps

Color code by fitness: see overview map or list of maps.

Maps containing gene(s) with specific phenotypes:

• Pyrimidine metabolism
• Glycerophospholipid metabolism
• Carotenoid biosynthesis - General
• Alkaloid biosynthesis I
• Fatty acid biosynthesis
• Urea cycle and metabolism of amino groups
• Purine metabolism
• Puromycin biosynthesis
• Cysteine metabolism
• Lysine degradation
• Arginine and proline metabolism
• Histidine metabolism
• Tyrosine metabolism
• Phenylalanine metabolism
• Phenylalanine, tyrosine and tryptophan biosynthesis
• Selenoamino acid metabolism
• Glutathione metabolism
• Nucleotide sugars metabolism
• Lipopolysaccharide biosynthesis
• Ether lipid metabolism
• alpha-Linolenic acid metabolism
• Glycosphingolipid biosynthesis - ganglio series
• 1- and 2-Methylnaphthalene degradation
• Benzoate degradation via CoA ligation
• Trinitrotoluene degradation
• Ethylbenzene degradation
• Butanoate metabolism
• Porphyrin and chlorophyll metabolism
• Limonene and pinene degradation
• Diterpenoid biosynthesis
• Sulfur metabolism
• Anthocyanin biosynthesis
• Alkaloid biosynthesis II
• Insect hormone biosynthesis
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide backbone
• Biosynthesis of phenylpropanoids
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
arginine dependent acid resistance	1	1	1
adenosine deoxyribonucleotides de novo biosynthesis II	4	4	2
guanosine deoxyribonucleotides de novo biosynthesis II	4	4	2
L-cysteine biosynthesis I	2	2	1
pseudouridine degradation	2	2	1
3-dehydroquinate biosynthesis I	2	2	1
putrescine biosynthesis I	2	2	1
L-arginine degradation III (arginine decarboxylase/agmatinase pathway)	2	2	1
guanosine deoxyribonucleotides de novo biosynthesis I	2	2	1
adenosine deoxyribonucleotides de novo biosynthesis I	2	2	1
UDP-α-D-galactofuranose biosynthesis	2	1	1
molybdenum cofactor biosynthesis	3	3	1
putrescine biosynthesis II	3	1	1
L-arginine degradation IV (arginine decarboxylase/agmatine deiminase pathway)	3	1	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli)	14	14	4
superpathway of adenosine nucleotides de novo biosynthesis II	7	7	2
superpathway of guanosine nucleotides de novo biosynthesis II	8	8	2
dTDP-β-D-fucofuranose biosynthesis	4	3	1
superpathway of putrescine biosynthesis	4	3	1
spermidine biosynthesis III	4	2	1
phospholipid remodeling (phosphatidylethanolamine, yeast)	4	2	1
pyrimidine deoxyribonucleotides de novo biosynthesis I	9	9	2
pyrimidine deoxyribonucleotides de novo biosynthesis III	9	8	2
superpathway of adenosine nucleotides de novo biosynthesis I	5	5	1
enterobacterial common antigen biosynthesis	5	4	1
seleno-amino acid biosynthesis (plants)	5	3	1
superpathway of guanosine nucleotides de novo biosynthesis I	6	6	1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis	6	4	1
superpathway of purine nucleotides de novo biosynthesis II	26	26	4
chorismate biosynthesis I	7	7	1
pyrimidine deoxyribonucleotides de novo biosynthesis IV	7	6	1
superpathway of polyamine biosynthesis I	8	7	1
pyrimidine deoxyribonucleotides biosynthesis from CTP	8	6	1
superpathway of polyamine biosynthesis II	8	4	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis	18	18	2
superpathway of sulfate assimilation and cysteine biosynthesis	9	9	1
superpathway of L-phenylalanine biosynthesis	10	10	1
superpathway of L-tyrosine biosynthesis	10	10	1
superpathway of enterobacterial common antigen biosynthesis	10	9	1
superpathway of purine nucleotides de novo biosynthesis I	21	21	2
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation	11	11	1
O-antigen building blocks biosynthesis (E. coli)	11	11	1
superpathway of histidine, purine, and pyrimidine biosynthesis	46	46	4
superpathway of L-tryptophan biosynthesis	13	13	1
superpathway of L-arginine and L-ornithine degradation	13	13	1
superpathway of purine nucleotide salvage	14	13	1
superpathway of arginine and polyamine biosynthesis	17	16	1
superpathway of aromatic amino acid biosynthesis	18	18	1
mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	18	1	1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis	19	9	1
superpathway of seleno-compound metabolism	19	6	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	13	1
superpathway of chorismate metabolism	59	54	1