Experiment set4S72 for Pseudomonas sp. RS175

D-Glucosamine Hydrochloride carbon source 10 mM

Group: carbon source
Media: MME_noCarbon + D-Glucosamine Hydrochloride (10 mM)
Culturing: Pseudomonas_RS175_ML2, 96 deep well, 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 16 genes in this experiment

For carbon source D-Glucosamine Hydrochloride in Pseudomonas sp. RS175

For carbon source D-Glucosamine Hydrochloride across organisms

SEED Subsystems

Subsystem	#Specific
Coenzyme PQQ synthesis	2
D-gluconate and ketogluconates metabolism	2
Pyrroloquinoline Quinone biosynthesis	2
Chorismate Synthesis	1
Common Pathway For Synthesis of Aromatic Compounds (DAHP synthase to chorismate)	1
Entner-Doudoroff Pathway	1
Respiratory dehydrogenases 1	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pentose phosphate pathway
• Glycine, serine and threonine metabolism
• gamma-Hexachlorocyclohexane degradation
• Bisphenol A degradation
• Phenylalanine, tyrosine and tryptophan biosynthesis
• 1- and 2-Methylnaphthalene degradation
• Naphthalene and anthracene degradation
• Benzoate degradation via CoA ligation
• Ethylbenzene degradation
• Retinol metabolism
• Limonene and pinene degradation
• Biosynthesis of phenylpropanoids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
D-serine degradation	3	3	3
L-serine degradation	3	3	2
L-cysteine degradation II	3	2	2
L-tryptophan degradation II (via pyruvate)	3	2	2
felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis	5	2	2
L-methionine biosynthesis II	6	5	2
glycine betaine degradation III	7	7	2
pyrroloquinoline quinone biosynthesis	7	4	2
glycine betaine degradation I	8	6	2
L-mimosine degradation	8	4	2
glutathione-mediated detoxification I	8	3	2
chorismate biosynthesis from 3-dehydroquinate	5	5	1
glucose degradation (oxidative)	5	4	1
glucose and glucose-1-phosphate degradation	5	4	1
chorismate biosynthesis I	7	7	1
L-ascorbate biosynthesis VIII (engineered pathway)	7	2	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II	15	13	2
superpathway of L-phenylalanine biosynthesis	10	10	1
superpathway of L-tyrosine biosynthesis	10	10	1
purine nucleobases degradation II (anaerobic)	24	16	2
chorismate biosynthesis II (archaea)	12	8	1
superpathway of L-tryptophan biosynthesis	13	13	1
superpathway of aromatic amino acid biosynthesis	18	18	1
superpathway of chorismate metabolism	59	43	1