Experiment set6IT090 for Klebsiella michiganensis M5al

LB with Nickel (II) chloride hexahydrate 1.5 mM

Group: stress
Media: LB + Nickel (II) chloride hexahydrate (1.5 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 A3

Specific Phenotypes

For 24 genes in this experiment

For stress Nickel (II) chloride hexahydrate in Klebsiella michiganensis M5al

For stress Nickel (II) chloride hexahydrate across organisms

SEED Subsystems

Subsystem	#Specific
Phosphate metabolism	2
Polyamine Metabolism	2
Ribonucleotide reduction	2
Calvin-Benson cycle	1
Campylobacter Iron Metabolism	1
Cobalt-zinc-cadmium resistance	1
Copper homeostasis: copper tolerance	1
Cysteine Biosynthesis	1
Glycolysis and Gluconeogenesis	1
Protein degradation	1
Rhamnose containing glycans	1
Teichoic and lipoteichoic acids biosynthesis	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
• Glutathione metabolism
• Glycolysis / Gluconeogenesis
• Pentose phosphate pathway
• Fructose and mannose metabolism
• Purine metabolism
• Puromycin biosynthesis
• Methionine metabolism
• Cysteine metabolism
• Selenoamino acid metabolism
• Nucleotide sugars metabolism
• alpha-Linolenic acid metabolism
• Trinitrotoluene degradation
• Carbon fixation in photosynthetic organisms
• Nicotinate and nicotinamide metabolism
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Sulfur metabolism
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of phenylpropanoids
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of alkaloids derived from terpenoid and polyketide
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
adenosine deoxyribonucleotides de novo biosynthesis II	4	4	2
guanosine deoxyribonucleotides de novo biosynthesis II	4	4	2
NAD phosphorylation and transhydrogenation	2	2	1
glutathione degradation (DUG pathway)	2	2	1
sedoheptulose bisphosphate bypass	2	2	1
guanosine deoxyribonucleotides de novo biosynthesis I	2	2	1
L-cysteine biosynthesis I	2	2	1
adenosine deoxyribonucleotides de novo biosynthesis I	2	2	1
pseudouridine degradation	2	2	1
NAD phosphorylation and dephosphorylation	3	3	1
polymyxin resistance	6	5	2
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
queuosine biosynthesis I (de novo)	4	4	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
sucrose degradation V (sucrose α-glucosidase)	5	3	1
seleno-amino acid biosynthesis (plants)	5	3	1
queuosine biosynthesis III (queuosine salvage)	5	3	1
superpathway of guanosine nucleotides de novo biosynthesis I	6	6	1
pentose phosphate pathway (non-oxidative branch) II	6	5	1
γ-glutamyl cycle	6	5	1
NAD(P)/NADPH interconversion	6	4	1
superpathway of purine nucleotides de novo biosynthesis II	26	26	4
Calvin-Benson-Bassham cycle	13	10	2
pyrimidine deoxyribonucleotides de novo biosynthesis IV	7	6	1
pyrimidine deoxyribonucleotides biosynthesis from CTP	8	6	1
oxygenic photosynthesis	17	11	2
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis	18	18	2
superpathway of sulfate assimilation and cysteine biosynthesis	9	9	1
formaldehyde assimilation II (assimilatory RuMP Cycle)	9	7	1
sucrose biosynthesis I (from photosynthesis)	9	7	1
1,3-propanediol biosynthesis (engineered)	9	7	1
superpathway of enterobacterial common antigen biosynthesis	10	9	1
glycolysis IV	10	8	1
glycolysis V (Pyrococcus)	10	7	1
superpathway of purine nucleotides de novo biosynthesis I	21	21	2
glycolysis II (from fructose 6-phosphate)	11	11	1
glycolysis III (from glucose)	11	11	1
glycolysis VI (from fructose)	11	8	1
superpathway of histidine, purine, and pyrimidine biosynthesis	46	46	4
homolactic fermentation	12	12	1
formaldehyde assimilation III (dihydroxyacetone cycle)	12	11	1
gluconeogenesis III	12	9	1
ethene biosynthesis V (engineered)	25	18	2
glycolysis I (from glucose 6-phosphate)	13	13	1
gluconeogenesis I	13	13	1
photosynthetic 3-hydroxybutanoate biosynthesis (engineered)	26	19	2
1-butanol autotrophic biosynthesis (engineered)	27	19	2
superpathway of purine nucleotide salvage	14	13	1
superpathway of glycolysis and the Entner-Doudoroff pathway	17	17	1
superpathway of hexitol degradation (bacteria)	18	18	1
gluconeogenesis II (Methanobacterium thermoautotrophicum)	18	9	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	19	1
superpathway of anaerobic sucrose degradation	19	18	1
superpathway of seleno-compound metabolism	19	6	1
superpathway of N-acetylneuraminate degradation	22	22	1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	18	1
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	25	1
Methanobacterium thermoautotrophicum biosynthetic metabolism	56	23	1