Experiment set2S819 for Pseudomonas aeruginosa MRSN321

carbon source 10 mM (+)-Sodium L-ascorbate

Group: carbon source
Media: Hans_Basal_Media + (+) Sodium L-ascorbate (10 mM), pH=7
Culturing: Paeruginosa_MRSN321_ML2, 96 deep-well block, Aerobic, at 30 (C), shaken=700 rpm
By: Hans and Ryan on 7/7/2025
Media components: 0.03 M PIPES sesquisodium salt, 0.1 g/L Potassium Chloride, 0.01 g/L Sodium Chloride, 0.01 g/L Calcium chloride dihydrate, 0.1 g/L Magnesium chloride hexahydrate, 0.1 g/L Sodium sulfate, 0.25 g/L Ammonium chloride, 0.1 g/L Disodium phosphate, DL vitamins (0.0002 mg/L biotin, 0.0002 mg/L Folic Acid, 0.001 mg/L Pyridoxine HCl, 0.0005 mg/L Riboflavin, 0.0005 mg/L Thiamine HCl, 0.0005 mg/L Nicotinic Acid, 0.0005 mg/L calcium pantothenate, 1e-05 mg/L Cyanocobalamin, 0.0005 mg/L 4-Aminobenzoic acid, 0.0005 mg/L Lipoic acid), Sulfur-free DL minerals (0.0003 g/L Magnesium chloride hexahydrate, 0.00015 g/L Nitrilotriacetic acid disodium salt, 0.0001 g/L Sodium Chloride, 5e-05 g/L Manganese (II) chloride tetrahydrate, 1e-05 g/L Cobalt chloride hexahydrate, 1.3e-05 g/L Zinc chloride, 1e-05 g/L Calcium chloride dihydrate, 1e-05 g/L Iron (II) chloride tetrahydrate, 2.5e-06 g/L Nickel (II) chloride hexahydrate, 2e-06 g/L Aluminum chloride hydrate, 1e-06 g/L copper (II) chloride dihydrate, 1e-06 g/L Boric Acid, 1e-06 g/L Sodium Molybdate Dihydrate, 3e-05 g/L Sodium selenite pentahydrate, 2.5e-05 g/L Sodium tungstate dihydrate)

Specific Phenotypes

For 39 genes in this experiment

For carbon source (+) Sodium L-ascorbate in Pseudomonas aeruginosa MRSN321

For carbon source (+) Sodium L-ascorbate across organisms

SEED Subsystems

Subsystem	#Specific
Arginine and Ornithine Degradation	3
Na(+)-translocating NADH-quinone oxidoreductase and rnf-like group of electron transport complexes	2
Photorespiration (oxidative C2 cycle)	2
Arginine Biosynthesis extended	1
Biogenesis of c-type cytochromes	1
Biogenesis of cytochrome c oxidases	1
Copper homeostasis: copper tolerance	1
D-galactarate, D-glucarate and D-glycerate catabolism	1
Glutathione-dependent pathway of formaldehyde detoxification	1
Glutathione: Biosynthesis and gamma-glutamyl cycle	1
Glutathione: Non-redox reactions	1
Glycine and Serine Utilization	1
Glycine cleavage system	1
Lactate utilization	1
Methylglyoxal Metabolism	1
Nudix proteins (nucleoside triphosphate hydrolases)	1
Oxidative stress	1
Periplasmic disulfide interchange	1
Phosphate metabolism	1
Polyamine Metabolism	1
Potassium homeostasis	1
Queuosine-Archaeosine Biosynthesis	1
Ribosomal protein S12p Asp methylthiotransferase	1
Utilization of glutathione as a sulphur source	1
ZZ gjo need homes	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
• Urea cycle and metabolism of amino groups
• Purine metabolism
• Pyrimidine metabolism
• Tryptophan metabolism
• Lipopolysaccharide biosynthesis
• Methane metabolism
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Ubiquinone and menaquinone biosynthesis
• Photosynthesis
• Puromycin biosynthesis
• Glycine, serine and threonine metabolism
• Methionine metabolism
• Histidine metabolism
• Tyrosine metabolism
• Benzoxazinone biosynthesis
• Taurine and hypotaurine metabolism
• Selenoamino acid metabolism
• Cyanoamino acid metabolism
• Glutathione metabolism
• Arachidonic acid metabolism
• Pyruvate metabolism
• Naphthalene and anthracene degradation
• Folate biosynthesis
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Drug metabolism - other enzymes
• Biosynthesis of alkaloids derived from shikimate pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
superoxide radicals degradation	2	2	1
spermidine biosynthesis I	2	2	1
spermine biosynthesis	2	1	1
methanol oxidation to formaldehyde IV	2	1	1
glutathione degradation (DUG pathway)	2	1	1
L-lyxonate degradation	3	3	1
glycine cleavage	3	3	1
glycine biosynthesis II	3	3	1
formaldehyde oxidation II (glutathione-dependent)	3	3	1
aminopropylcadaverine biosynthesis	3	3	1
ethanol degradation IV	3	3	1
methylglyoxal degradation I	3	2	1
methylglyoxal degradation VIII	3	2	1
5-(methoxycarbonylmethoxy)uridine biosynthesis	3	1	1
reactive oxygen species degradation	4	4	1
spermidine biosynthesis III	4	2	1
photosynthesis light reactions	4	1	1
NADPH to cytochrome c oxidase via plastocyanin (thylakoid membrane)	4	1	1
L-arginine biosynthesis II (acetyl cycle)	10	10	2
L-ornithine biosynthesis I	5	5	1
L-arginine degradation II (AST pathway)	5	5	1
peptido-conjugates in tissue regeneration biosynthesis	17	8	3
γ-glutamyl cycle	6	4	1
superpathway of photosynthetic hydrogen production	6	2	1
leukotriene biosynthesis	6	2	1
superpathway of polyamine biosynthesis I	8	7	1
superpathway of polyamine biosynthesis II	8	6	1
superpathway of methylglyoxal degradation	8	5	1
superpathway of arginine and polyamine biosynthesis	17	16	2
L-arginine biosynthesis I (via L-ornithine)	9	9	1
L-arginine biosynthesis III (via N-acetyl-L-citrulline)	9	8	1
L-methionine salvage cycle III	11	9	1
L-methionine salvage cycle I (bacteria and plants)	12	8	1
superpathway of C1 compounds oxidation to CO2	12	5	1
hypoglycin biosynthesis	14	4	1
oxygenic photosynthesis	17	11	1
ethene biosynthesis V (engineered)	25	18	1
photosynthetic 3-hydroxybutanoate biosynthesis (engineered)	26	19	1
1-butanol autotrophic biosynthesis (engineered)	27	19	1