Experiment set25S52 for Pseudomonas fluorescens SBW25-INTG

L-Hydroxyproline carbon source

Group: carbon source
Media: MME_noCarbon + Hydroxy-L-Proline (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 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 8 genes in this experiment

For carbon source Hydroxy-L-Proline in Pseudomonas fluorescens SBW25-INTG

For carbon source Hydroxy-L-Proline across organisms

SEED Subsystems

Subsystem	#Specific
Proline, 4-hydroxyproline uptake and utilization	5
Respiratory dehydrogenases 1	2
Arginine and Ornithine Degradation	1
D-Galacturonate and D-Glucuronate Utilization	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Arginine and proline metabolism
• Ascorbate and aldarate metabolism
• Glutamate metabolism
• Lysine biosynthesis
• Phenylalanine metabolism
• Nitrogen metabolism
• Caprolactam degradation
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
trans-4-hydroxy-L-proline degradation II	4	4	4
L-proline degradation I	3	3	2
pyruvate fermentation to acetate VIII	2	1	1
D-galactarate degradation II	3	3	1
D-glucarate degradation II	3	3	1
L-arginine degradation I (arginase pathway)	3	3	1
L-lyxonate degradation	3	2	1
L-carnitine degradation II	3	1	1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast)	8	7	2
1,2-dichloroethane degradation	4	3	1
ethene biosynthesis II (microbes)	4	1	1
D-glucuronate degradation II	5	4	1
cytosolic NADPH production (yeast)	5	4	1
mitochondrial NADPH production (yeast)	5	4	1
D-galacturonate degradation II	5	3	1
D-xylose degradation III	5	1	1
D-xylose degradation V	5	1	1
L-arabinose degradation III	6	5	1
D-arabinose degradation III	6	2	1
(5R)-carbapenem carboxylate biosynthesis	6	1	1
L-Nδ-acetylornithine biosynthesis	7	6	1
L-citrulline biosynthesis	8	8	1
superpathway of L-citrulline metabolism	12	10	1
superpathway of pentose and pentitol degradation	42	16	2
superpathway of microbial D-galacturonate and D-glucuronate degradation	31	13	1