Experiment set25S87 for Pseudomonas fluorescens SBW25-INTG

Sodium propionate carbon source

Group: carbon source
Media: MME_noCarbon + Sodium propionate (20 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 1/31/23
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 15 genes in this experiment

For carbon source Sodium propionate in Pseudomonas fluorescens SBW25-INTG

For carbon source Sodium propionate across organisms

SEED Subsystems

Subsystem	#Specific
Methylcitrate cycle	3
Multidrug Resistance, Tripartite Systems Found in Gram Negative Bacteria	3
Propionate-CoA to Succinate Module	3
Terminal cytochrome C oxidases	2
Glutathione-regulated potassium-efflux system and associated functions	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Propanoate metabolism
• Citrate cycle (TCA cycle)
• Oxidative phosphorylation
• Geraniol degradation
• Pyruvate metabolism
• 1- and 2-Methylnaphthalene degradation
• Glyoxylate and dicarboxylate metabolism
• Reductive carboxylate cycle (CO2 fixation)
• Biosynthesis of phenylpropanoids
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of alkaloids derived from terpenoid and polyketide
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
2-methylcitrate cycle I	5	5	3
2-methylcitrate cycle II	6	5	3
arsenite to oxygen electron transfer	2	1	1
glyoxylate cycle	6	5	2
arsenite to oxygen electron transfer (via azurin)	3	1	1
partial TCA cycle (obligate autotrophs)	8	8	2
nitrogen remobilization from senescing leaves	8	6	2
aerobic respiration II (cytochrome c) (yeast)	4	3	1
aerobic respiration I (cytochrome c)	4	3	1
TCA cycle VII (acetate-producers)	9	7	2
TCA cycle II (plants and fungi)	9	7	2
TCA cycle VI (Helicobacter)	9	7	2
TCA cycle V (2-oxoglutarate synthase)	9	7	2
TCA cycle IV (2-oxoglutarate decarboxylase)	9	7	2
TCA cycle I (prokaryotic)	10	9	2
TCA cycle III (animals)	10	7	2
reductive TCA cycle I	11	6	2
superpathway of glyoxylate bypass and TCA	12	11	2
Fe(II) oxidation	6	3	1
reductive TCA cycle II	12	5	2
superpathway of glyoxylate cycle and fatty acid degradation	14	12	2
mixed acid fermentation	16	11	2
methylaspartate cycle	19	9	2
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	18	2
ethene biosynthesis V (engineered)	25	18	2
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	22	2