Experiment set19IT042 for Pseudomonas fluorescens SBW25-INTG

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Glycine betaine (C)(N); with MOPS

Group: no stress control
Media: MME_noNitrogen_noCarbon + Betaine (20 mM), pH=7
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 8 (C), shaken=1200 rpm
By: Joshua Elmore on September 1, 2021
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM 3-(N-morpholino)propanesulfonic acid, 4.3 mM Sodium Chloride, 0.41 mM Magnesium Sulfate Heptahydrate, 0.07 mM Calcium chloride dihydrate, MME Trace Minerals (0.5 mg/L EDTA tetrasodium tetrahydrate salt, 2 mg/L Ferric chloride, 0.05 mg/L Boric Acid, 0.05 mg/L Zinc chloride, 0.03 mg/L copper (II) chloride dihydrate, 0.05 mg/L Manganese (II) chloride tetrahydrate, 0.05 mg/L Diammonium molybdate, 0.05 mg/L Cobalt chloride hexahydrate, 0.05 mg/L Nickel (II) chloride hexahydrate)

Specific Phenotypes

For 13 genes in this experiment

For no stress control Betaine in Pseudomonas fluorescens SBW25-INTG

For no stress control Betaine across organisms

SEED Subsystems

Subsystem #Specific
Phosphate metabolism 3
Ammonia assimilation 1
Entner-Doudoroff Pathway 1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria 1
Glycine and Serine Utilization 1
Methylglyoxal Metabolism 1
Molybdenum cofactor biosynthesis 1
One-carbon metabolism by tetrahydropterines 1
Purine conversions 1
Pyruvate Alanine Serine Interconversions 1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate 1
Riboflavin, FMN and FAD metabolism 1
Threonine degradation 1
Ubiquinone Biosynthesis 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
L-serine degradation 3 3 3
formaldehyde oxidation IV (thiol-independent) 1 1 1
L-cysteine degradation II 3 3 2
D-serine degradation 3 3 2
L-tryptophan degradation II (via pyruvate) 3 2 2
inosine 5'-phosphate degradation 4 4 2
phenylethylamine degradation I 2 2 1
polyphosphate metabolism 2 2 1
putrescine degradation V 2 2 1
ethylene glycol degradation 2 1 1
phenylethanol degradation 2 1 1
putrescine degradation I 2 1 1
phenylethylamine degradation II 2 1 1
glycine betaine degradation III 7 7 3
felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis 5 2 2
adenosine nucleotides degradation I 8 7 3
glycine betaine degradation I 8 6 3
purine nucleotides degradation II (aerobic) 11 11 4
ethanol degradation IV 3 3 1
glycine degradation 3 3 1
ethanol degradation II 3 3 1
purine nucleotides degradation I (plants) 12 10 4
L-methionine biosynthesis II 6 5 2
L-phenylalanine degradation II (anaerobic) 3 2 1
hypotaurine degradation 3 2 1
putrescine degradation IV 3 2 1
ethanol degradation III 3 2 1
NAD salvage pathway III (to nicotinamide riboside) 3 2 1
styrene degradation 3 1 1
CDP-4-dehydro-3,6-dideoxy-D-glucose biosynthesis 3 1 1
histamine degradation 3 1 1
ureide biosynthesis 7 6 2
UTP and CTP dephosphorylation I 7 5 2
guanosine nucleotides degradation III 4 4 1
guanosine ribonucleotides de novo biosynthesis 4 4 1
formaldehyde oxidation VII (THF pathway) 4 4 1
guanosine nucleotides degradation II 4 4 1
guanosine nucleotides degradation I 4 3 1
phytol degradation 4 3 1
putrescine degradation III 4 3 1
L-mimosine degradation 8 4 2
L-tryptophan degradation X (mammalian, via tryptamine) 4 2 1
D-arabinose degradation II 4 2 1
fatty acid α-oxidation I (plants) 4 2 1
glutathione-mediated detoxification I 8 3 2
flavin biosynthesis I (bacteria and plants) 9 8 2
superpathway of purines degradation in plants 18 14 4
flavin biosynthesis III (fungi) 9 7 2
adenosine nucleotides degradation II 5 5 1
mitochondrial NADPH production (yeast) 5 4 1
octane oxidation 5 4 1
6-hydroxymethyl-dihydropterin diphosphate biosynthesis III (Chlamydia) 5 3 1
sphingosine and sphingosine-1-phosphate metabolism 10 4 2
dopamine degradation 5 2 1
superpathway of guanosine nucleotides de novo biosynthesis I 6 6 1
superpathway of guanosine nucleotides degradation (plants) 6 5 1
purine nucleobases degradation II (anaerobic) 24 16 4
NAD(P)/NADPH interconversion 6 3 1
3-methyl-branched fatty acid α-oxidation 6 3 1
methanol oxidation to carbon dioxide 6 3 1
alkane oxidation 6 1 1
noradrenaline and adrenaline degradation 13 8 2
superpathway of glycol metabolism and degradation 7 5 1
serotonin degradation 7 4 1
toxoflavin biosynthesis 7 3 1
ceramide degradation by α-oxidation 7 2 1
limonene degradation IV (anaerobic) 7 1 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II 15 13 2
superpathway of guanosine nucleotides de novo biosynthesis II 8 7 1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) 8 7 1
aromatic biogenic amine degradation (bacteria) 8 4 1
superpathway of ornithine degradation 8 4 1
ceramide and sphingolipid recycling and degradation (yeast) 16 4 2
superpathway of CDP-glucose-derived O-antigen building blocks biosynthesis 8 1 1
Entner-Doudoroff pathway II (non-phosphorylative) 9 6 1
L-phenylalanine degradation IV (mammalian, via side chain) 9 5 1
tunicamycin biosynthesis 9 2 1
flavin biosynthesis II (archaea) 10 5 1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation 11 7 1
superpathway of phenylethylamine degradation 11 6 1
NAD salvage (plants) 11 5 1
superpathway of C1 compounds oxidation to CO2 12 5 1
folate transformations I 13 9 1
superpathway of L-arginine and L-ornithine degradation 13 9 1
superpathway of purine nucleotide salvage 14 13 1
purine nucleobases degradation I (anaerobic) 15 6 1
superpathway of purine nucleotides de novo biosynthesis I 21 21 1
superpathway of purine nucleotides de novo biosynthesis II 26 24 1
anaerobic aromatic compound degradation (Thauera aromatica) 27 4 1
superpathway of pentose and pentitol degradation 42 16 1
superpathway of histidine, purine, and pyrimidine biosynthesis 46 44 1