Experiment set6IT069 for Klebsiella michiganensis M5al

Inosine nitrogen source

Group: nitrogen source
Media: RCH2_defined_Glucose_noNitrogen + Inosine (5 mM), pH=7
Culturing: Koxy_ML2, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Adam on 27-Apr-17
Media components: 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 20 mM D-Glucose, 30 mM PIPES sesquisodium salt, Wolfe's mineral mix (0.03 g/L Magnesium Sulfate Heptahydrate, 0.015 g/L Nitrilotriacetic acid, 0.01 g/L Sodium Chloride, 0.005 g/L Manganese (II) sulfate monohydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc sulfate heptahydrate, 0.001 g/L Calcium chloride dihydrate, 0.001 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.0002 g/L Aluminum potassium sulfate dodecahydrate, 0.0001 g/L Copper (II) sulfate pentahydrate, 0.0001 g/L Boric Acid, 0.0001 g/L Sodium Molybdate Dihydrate, 0.003 mg/L Sodium selenite pentahydrate), Wolfe's vitamin mix (0.1 mg/L Pyridoxine HCl, 0.05 mg/L 4-Aminobenzoic acid, 0.05 mg/L Lipoic acid, 0.05 mg/L Nicotinic Acid, 0.05 mg/L Riboflavin, 0.05 mg/L Thiamine HCl, 0.05 mg/L calcium pantothenate, 0.02 mg/L biotin, 0.02 mg/L Folic Acid, 0.001 mg/L Cyanocobalamin)
Growth plate: 1811 C2

Specific Phenotypes

For 8 genes in this experiment

For nitrogen source Inosine in Klebsiella michiganensis M5al

For nitrogen source Inosine across organisms

SEED Subsystems

Subsystem	#Specific
Hydantoin metabolism	1
Murein hydrolase regulation and cell death	1
Photorespiration (oxidative C2 cycle)	1
Pyruvate Alanine Serine Interconversions	1
Serine-glyoxylate cycle	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Purine metabolism
• Alanine and aspartate metabolism
• Glycine, serine and threonine metabolism
• Aminoacyl-tRNA biosynthesis
• Ascorbate and aldarate metabolism
• Ubiquinone and menaquinone biosynthesis
• Puromycin biosynthesis
• Caffeine metabolism
• Glutamate metabolism
• Methionine metabolism
• Lysine biosynthesis
• Lysine degradation
• Arginine and proline metabolism
• Tyrosine metabolism
• 1,1,1-Trichloro-2,2-bis(4-chlorophenyl)ethane (DDT) degradation
• Phenylalanine metabolism
• Benzoate degradation via hydroxylation
• Tryptophan metabolism
• Aminophosphonate metabolism
• Nucleotide sugars metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• Pyruvate metabolism
• Biphenyl degradation
• 1- and 2-Methylnaphthalene degradation
• Fluorene degradation
• 3-Chloroacrylic acid degradation
• Caprolactam degradation
• Phenylpropanoid biosynthesis
• Drug metabolism - other enzymes

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamine degradation I	1	1	1
glycine biosynthesis III	1	1	1
glutaminyl-tRNAgln biosynthesis via transamidation	4	3	3
L-asparagine biosynthesis III (tRNA-dependent)	4	3	3
urate conversion to allantoin I	3	3	2
L-glutamate biosynthesis I	2	2	1
urate conversion to allantoin II	3	3	1
ammonia assimilation cycle III	3	3	1
urate conversion to allantoin III	3	2	1
ureide biosynthesis	7	7	2
allantoin degradation to ureidoglycolate II (ammonia producing)	4	4	1
L-serine biosynthesis II	4	3	1
allantoin degradation to glyoxylate II	5	5	1
allantoin degradation to glyoxylate III	5	5	1
L-glutamate and L-glutamine biosynthesis	7	6	1
superpathway of allantoin degradation in plants	8	7	1
L-citrulline biosynthesis	8	6	1
allantoin degradation IV (anaerobic)	9	8	1
superpathway of purines degradation in plants	18	15	2
superpathway of L-citrulline metabolism	12	8	1