Experiment set9IT049 for Klebsiella michiganensis M5al

Compare to:

RCH2_defined_Glucose_noNitrogen in Eppendorf tube with 0.1 mM glass beads

Group: nitrogen source
Media: RCH2_defined_Glucose_noNitrogen + 0.1mM glass beads, pH=7
Culturing: Koxy_ML2, Eppendorf tube, Aerobic, at 30 (C), shaken=0 rpm
By: Trenton on 6-Mar-18
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 4 genes in this experiment

For nitrogen source 0.1mM glass beads in Klebsiella michiganensis M5al

For nitrogen source 0.1mM glass beads across organisms

SEED Subsystems

Subsystem #Specific
Methionine Degradation 1
Nitrogen fixation 1
Pyruvate:ferredoxin oxidoreductase 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
pyruvate fermentation to ethanol III 3 3 3
ethanol degradation I 2 2 2
acetaldehyde biosynthesis I 1 1 1
pyruvate decarboxylation to acetyl CoA III 1 1 1
pyruvate fermentation to ethanol I 3 3 2
reductive monocarboxylic acid cycle 2 2 1
L-alanine degradation V (oxidative Stickland reaction) 2 2 1
pyruvate fermentation to ethanol II 2 2 1
L-threonine degradation IV 2 2 1
pyruvate fermentation to acetate III 2 1 1
ethanolamine utilization 5 5 2
acetylene degradation (anaerobic) 5 4 2
superpathway of fermentation (Chlamydomonas reinhardtii) 9 9 3
2-deoxy-α-D-ribose 1-phosphate degradation 3 3 1
2-hydroxypenta-2,4-dienoate degradation 3 3 1
ethanol degradation II 3 3 1
pyruvate fermentation to acetate VII 3 3 1
pyruvate fermentation to acetate I 3 3 1
2-deoxy-D-ribose degradation I 3 3 1
L-leucine degradation III 3 2 1
pyruvate fermentation to acetate VI 3 2 1
L-isoleucine degradation II 3 2 1
L-methionine degradation III 3 2 1
L-valine degradation II 3 2 1
pyruvate fermentation to acetate and alanine 3 2 1
2-aminoethylphosphonate degradation I 3 1 1
sulfoacetaldehyde degradation IV 3 1 1
pyruvate fermentation to acetate and lactate II 4 4 1
phytol degradation 4 3 1
salidroside biosynthesis 4 2 1
L-phenylalanine degradation III 4 2 1
L-tyrosine degradation III 4 2 1
superpathway of Clostridium acetobutylicum solventogenic fermentation 13 7 3
(S)-propane-1,2-diol degradation 5 5 1
catechol degradation I (meta-cleavage pathway) 5 4 1
pyruvate fermentation to isobutanol (engineered) 5 4 1
pyruvate fermentation to acetone 5 3 1
phenylethanol biosynthesis 5 2 1
isopropanol biosynthesis (engineered) 5 2 1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation 17 9 3
superpathway of pyrimidine deoxyribonucleosides degradation 6 6 1
triethylamine degradation 6 1 1
noradrenaline and adrenaline degradation 13 4 2
superpathway of purine deoxyribonucleosides degradation 7 7 1
3-methylbutanol biosynthesis (engineered) 7 6 1
incomplete reductive TCA cycle 7 5 1
pyruvate fermentation to butanoate 7 4 1
catechol degradation II (meta-cleavage pathway) 7 4 1
toluene degradation V (aerobic) (via toluene-cis-diol) 7 4 1
toluene degradation I (aerobic) (via o-cresol) 7 4 1
serotonin degradation 7 3 1
mixed acid fermentation 16 16 2
3-phenylpropanoate and 3-(3-hydroxyphenyl)propanoate degradation 8 6 1
lactate fermentation to acetate, CO2 and hydrogen (Desulfovibrionales) 8 5 1
pyruvate fermentation to butanol I 8 4 1
butanol and isobutanol biosynthesis (engineered) 8 3 1
p-cumate degradation 8 3 1
heterolactic fermentation 18 16 2
superpathway of L-alanine fermentation (Stickland reaction) 9 7 1
Entner-Doudoroff pathway II (non-phosphorylative) 9 7 1
reductive glycine pathway of autotrophic CO2 fixation 9 6 1
superpathway of Clostridium acetobutylicum acidogenic fermentation 9 6 1
hexitol fermentation to lactate, formate, ethanol and acetate 19 19 2
meta cleavage pathway of aromatic compounds 10 6 1
superpathway of N-acetylneuraminate degradation 22 22 2
pyruvate fermentation to hexanol (engineered) 11 8 1
reductive TCA cycle I 11 8 1
p-cymene degradation 11 3 1
reductive TCA cycle II 12 7 1
L-glutamate degradation VII (to butanoate) 12 7 1
naphthalene degradation to acetyl-CoA 12 5 1
L-tryptophan degradation XII (Geobacillus) 12 4 1
L-tryptophan degradation IX 12 4 1
toluene degradation IV (aerobic) (via catechol) 13 7 1
L-tryptophan degradation V (side chain pathway) 13 1 1
glycerol degradation to butanol 16 12 1
superpathway of L-threonine metabolism 18 18 1
mandelate degradation to acetyl-CoA 18 14 1
gluconeogenesis II (Methanobacterium thermoautotrophicum) 18 9 1
superpathway of anaerobic sucrose degradation 19 18 1
purine nucleobases degradation II (anaerobic) 24 17 1
superpathway of aerobic toluene degradation 30 15 1
superpathway of aromatic compound degradation via 3-oxoadipate 35 23 1
superpathway of aromatic compound degradation via 2-hydroxypentadienoate 42 17 1
Methanobacterium thermoautotrophicum biosynthetic metabolism 56 23 1