Experiment set5S883 for Rhodanobacter sp. FW510-T8

Compare to:

Survival; Treatment=20250415-M4-SZ1-UF; TreatmentDuration=1week; Outgrowth=R2A_Kan5

Group: survival
Media: + Treatment=20250415-M4-SZ1-UF; TreatmentDuration=1week; Outgrowth=R2A_Kan5
Culturing: rhodanobacter_T8_ML1, tube, Aerobic, at 30 (C)
By: Adams lab on 9/22/25

Specific Phenotypes

For 19 genes in this experiment

For survival Treatment=20250415-M4-SZ1-UF; TreatmentDuration=1week; Outgrowth=R2A_Kan5 in Rhodanobacter sp. FW510-T8

For survival Treatment=20250415-M4-SZ1-UF; TreatmentDuration=1week; Outgrowth=R2A_Kan5 across organisms

SEED Subsystems

Subsystem #Specific
Glycine and Serine Utilization 2
Pyruvate Alanine Serine Interconversions 2
Acetyl-CoA fermentation to Butyrate 1
Anaerobic respiratory reductases 1
Arginine Biosynthesis extended 1
Arginine and Ornithine Degradation 1
Biotin biosynthesis 1
Butanol Biosynthesis 1
Glutathione: Non-redox reactions 1
Glycerol and Glycerol-3-phosphate Uptake and Utilization 1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria 1
Glycine cleavage system 1
Isobutyryl-CoA to Propionyl-CoA Module 1
Isoleucine degradation 1
Ketoisovalerate oxidoreductase 1
MLST 1
Methylglyoxal Metabolism 1
Orphan regulatory proteins 1
Proline, 4-hydroxyproline uptake and utilization 1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate 1
Respiratory dehydrogenases 1 1
Thiamin biosynthesis 1
Valine degradation 1
ZZ gjo need homes 1
n-Phenylalkanoic acid degradation 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
long-chain fatty acid activation 1 1 1
acetate and ATP formation from acetyl-CoA III 1 1 1
acetate conversion to acetyl-CoA 1 1 1
L-cysteine degradation II 3 3 2
D-serine degradation 3 2 2
L-tryptophan degradation II (via pyruvate) 3 2 2
thiamine diphosphate biosynthesis I (E. coli) 2 2 1
thiamine diphosphate biosynthesis II (Bacillus) 2 2 1
linoleate biosynthesis II (animals) 2 1 1
γ-linolenate biosynthesis II (animals) 2 1 1
glycine betaine degradation III 7 4 3
felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis 5 2 2
glycine betaine degradation I 8 4 3
ethanol degradation IV 3 3 1
superpathway of acetate utilization and formation 3 3 1
ethanol degradation II 3 3 1
glycine degradation 3 3 1
L-arginine degradation I (arginase pathway) 3 3 1
L-methionine biosynthesis II 6 4 2
L-proline degradation I 3 2 1
thiamine diphosphate salvage V 3 2 1
methylglyoxal degradation VIII 3 2 1
ethanol degradation III 3 2 1
methylglyoxal degradation I 3 2 1
L-isoleucine biosynthesis V 3 2 1
3-methyl-branched fatty acid α-oxidation 6 3 2
thiamine diphosphate biosynthesis III (Staphylococcus) 3 1 1
glycerol degradation I 3 1 1
thiamine diphosphate biosynthesis IV (eukaryotes) 3 1 1
alkane biosynthesis II 3 1 1
oleate biosynthesis I (plants) 3 1 1
phytol degradation 4 3 1
L-mimosine degradation 8 4 2
glycerol and glycerophosphodiester degradation 4 2 1
chitin deacetylation 4 2 1
phosphatidylcholine acyl editing 4 2 1
glutathione-mediated detoxification I 8 3 2
ethene biosynthesis II (microbes) 4 1 1
wax esters biosynthesis II 4 1 1
long chain fatty acid ester synthesis (engineered) 4 1 1
sporopollenin precursors biosynthesis 18 4 4
L-ornithine biosynthesis I 5 5 1
2-methylcitrate cycle I 5 4 1
thiamine diphosphate salvage II 5 4 1
sphingosine and sphingosine-1-phosphate metabolism 10 4 2
octane oxidation 5 2 1
fatty acid salvage 6 5 1
stearate biosynthesis II (bacteria and plants) 6 5 1
stearate biosynthesis IV 6 4 1
pyruvate fermentation to butanol II (engineered) 6 4 1
L-isoleucine biosynthesis IV 6 4 1
2-methylcitrate cycle II 6 3 1
β-alanine biosynthesis II 6 2 1
6-gingerol analog biosynthesis (engineered) 6 2 1
superpathway of bitter acids biosynthesis 18 3 3
stearate biosynthesis I (animals) 6 1 1
adlupulone and adhumulone biosynthesis 6 1 1
lupulone and humulone biosynthesis 6 1 1
colupulone and cohumulone biosynthesis 6 1 1
superpathway of thiamine diphosphate biosynthesis III (eukaryotes) 7 3 1
thiamine diphosphate salvage IV (yeast) 7 3 1
ceramide degradation by α-oxidation 7 2 1
icosapentaenoate biosynthesis II (6-desaturase, mammals) 7 1 1
icosapentaenoate biosynthesis III (8-desaturase, mammals) 7 1 1
capsaicin biosynthesis 7 1 1
arachidonate biosynthesis III (6-desaturase, mammals) 7 1 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II 15 12 2
superpathway of methylglyoxal degradation 8 4 1
purine nucleobases degradation II (anaerobic) 24 9 3
thiamine diphosphate formation from pyrithiamine and oxythiamine (yeast) 8 3 1
ceramide and sphingolipid recycling and degradation (yeast) 16 4 2
2-deoxy-D-ribose degradation II 8 2 1
L-arginine biosynthesis III (via N-acetyl-L-citrulline) 9 9 1
L-arginine biosynthesis I (via L-ornithine) 9 8 1
reductive glycine pathway of autotrophic CO2 fixation 9 5 1
cis-geranyl-CoA degradation 9 1 1
superpathway of thiamine diphosphate biosynthesis I 10 8 1
L-arginine biosynthesis II (acetyl cycle) 10 8 1
superpathway of coenzyme A biosynthesis II (plants) 10 6 1
suberin monomers biosynthesis 20 2 2
superpathway of fatty acid biosynthesis II (plant) 43 38 4
superpathway of thiamine diphosphate biosynthesis II 11 10 1
pyruvate fermentation to hexanol (engineered) 11 7 1
palmitate biosynthesis II (type II fatty acid synthase) 31 29 2
cutin biosynthesis 16 1 1
superpathway of arginine and polyamine biosynthesis 17 12 1
oleate β-oxidation 35 32 2
superpathway of fatty acids biosynthesis (E. coli) 53 51 2
1-butanol autotrophic biosynthesis (engineered) 27 18 1
palmitate biosynthesis III 29 21 1