Experiment set25S35 for Pseudomonas fluorescens SBW25-INTG

D-Mannitol carbon source

Group: carbon source
Media: MME_noCarbon + D-Mannitol (10 mM), pH=7
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=1200 rpm
By: Andrew Frank on 31-Jan-23
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM 3-(N-morpholino)propanesulfonic acid, 4.3 mM Sodium Chloride, 10 mM Ammonium 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 carbon source D-Mannitol in Pseudomonas fluorescens SBW25-INTG

For carbon source D-Mannitol across organisms

SEED Subsystems

Subsystem	#Specific
Ribitol, Xylitol, Arabitol, Mannitol and Sorbitol utilization	8
D-ribose utilization	2
Mannitol Utilization	2
Acetyl-CoA fermentation to Butyrate	1
Anaerobic respiratory reductases	1
Butanol Biosynthesis	1
De Novo Pyrimidine Synthesis	1
Deoxyribose and Deoxynucleoside Catabolism	1
Fructose utilization	1
Isobutyryl-CoA to Propionyl-CoA Module	1
Isoleucine degradation	1
LMPTP YwlE cluster	1
Sucrose utilization	1
Sucrose utilization Shewanella	1
Valine degradation	1
Xylose utilization	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fructose and mannose metabolism
• Fatty acid metabolism
• Valine, leucine and isoleucine degradation
• Nucleotide sugars metabolism
• Butanoate metabolism
• Pentose phosphate pathway
• Pentose and glucuronate interconversions
• Ascorbate and aldarate metabolism
• C21-Steroid hormone metabolism
• Pyrimidine metabolism
• Glycine, serine and threonine metabolism
• Bisphenol A degradation
• beta-Alanine metabolism
• Starch and sucrose metabolism
• Polyketide sugar unit biosynthesis
• Aminosugars metabolism
• Linoleic acid metabolism
• Tetrachloroethene degradation
• Benzoate degradation via CoA ligation
• Propanoate metabolism
• Retinol metabolism
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide products
• Biosynthesis of alkaloids derived from shikimate pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
pyrimidine nucleobases salvage I	1	1	1
D-xylose degradation I	2	2	1
xylitol degradation I	2	2	1
pyrimidine nucleobases salvage II	2	2	1
D-arabinitol degradation I	2	1	1
ribose phosphorylation	2	1	1
mannitol cycle	5	3	2
D-sorbitol degradation I	3	3	1
sucrose degradation I (sucrose phosphotransferase)	3	2	1
2-deoxy-D-ribose degradation I	3	1	1
superpathway of pyrimidine nucleobases salvage	4	4	1
sucrose degradation IV (sucrose phosphorylase)	4	3	1
sucrose degradation III (sucrose invertase)	4	3	1
sucrose degradation VII (sucrose 3-dehydrogenase)	4	1	1
sucrose degradation II (sucrose synthase)	5	4	1
pyruvate fermentation to butanol II (engineered)	6	4	1
2-methyl-branched fatty acid β-oxidation	14	11	2
superpathway of pyrimidine ribonucleosides salvage	10	6	1
pyruvate fermentation to hexanol (engineered)	11	7	1
superpathway of glucose and xylose degradation	17	16	1
heterolactic fermentation	18	13	1
superpathway of anaerobic sucrose degradation	19	14	1
1-butanol autotrophic biosynthesis (engineered)	27	19	1
superpathway of pentose and pentitol degradation	42	16	1