Experiment set5S882 for Rhodanobacter sp. FW510-T8

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 18 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
Phosphate metabolism	2
Thiamin biosynthesis	2
Acetyl-CoA fermentation to Butyrate	1
Ammonia assimilation	1
Anaerobic respiratory reductases	1
Butanol Biosynthesis	1
Cobalt-zinc-cadmium resistance	1
Glycerol and Glycerol-3-phosphate Uptake and Utilization	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Glycine and Serine Utilization	1
High affinity phosphate transporter and control of PHO regulon	1
Isobutyryl-CoA to Propionyl-CoA Module	1
Isoleucine degradation	1
MLST	1
Proteolysis in bacteria, ATP-dependent	1
Purine conversions	1
Pyruvate Alanine Serine Interconversions	1
Thioredoxin-disulfide reductase	1
Twin-arginine translocation system	1
Valine degradation	1
YcfH	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fatty acid metabolism
• Valine, leucine and isoleucine degradation
• Oxidative phosphorylation
• Geraniol degradation
• Glutathione metabolism
• Glycerolipid metabolism
• 1- and 2-Methylnaphthalene degradation
• Benzoate degradation via CoA ligation
• Butanoate metabolism
• Thiamine metabolism
• Brassinosteroid biosynthesis
• Caprolactam degradation
• Biosynthesis of terpenoids and steroids
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
thiamine diphosphate biosynthesis I (E. coli)	2	2	1
polyphosphate metabolism	2	2	1
thiamine diphosphate biosynthesis II (Bacillus)	2	2	1
thiamine diphosphate salvage V	3	2	1
glycerol degradation I	3	1	1
thiamine diphosphate biosynthesis IV (eukaryotes)	3	1	1
thiamine diphosphate biosynthesis III (Staphylococcus)	3	1	1
glycerol and glycerophosphodiester degradation	4	2	1
superpathway of thiamine diphosphate biosynthesis I	10	8	2
thiamine diphosphate salvage II	5	4	1
superpathway of thiamine diphosphate biosynthesis II	11	10	2
pyruvate fermentation to butanol II (engineered)	6	4	1
thiazole component of thiamine diphosphate biosynthesis I	6	4	1
thiazole component of thiamine diphosphate biosynthesis II	7	6	1
superpathway of thiamine diphosphate biosynthesis III (eukaryotes)	7	3	1
thiamine diphosphate salvage IV (yeast)	7	3	1
thiamine diphosphate formation from pyrithiamine and oxythiamine (yeast)	8	3	1
pyruvate fermentation to hexanol (engineered)	11	7	1
1-butanol autotrophic biosynthesis (engineered)	27	18	1
oleate β-oxidation	35	32	1