Experiment set5IT062 for Klebsiella michiganensis M5al

Gly-Glu carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + Gly-Glu (20 mM), pH=7
Culturing: Koxy_ML2, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
By: Adam on 27-Mar-17
Media components: 0.25 g/L Ammonium chloride, 0.1 g/L Potassium Chloride, 0.6 g/L Sodium phosphate monobasic monohydrate, 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: 1766 C1

Specific Phenotypes

For 7 genes in this experiment

For carbon source Gly-Glu in Klebsiella michiganensis M5al

For carbon source Gly-Glu across organisms

SEED Subsystems

Subsystem	#Specific
Acetoin, butanediol metabolism	1
Branched-Chain Amino Acid Biosynthesis	1
Chitin and N-acetylglucosamine utilization	1
Fructose utilization	1
Glycine and Serine Utilization	1
Glycine cleavage system	1
Photorespiration (oxidative C2 cycle)	1
Sialic Acid Metabolism	1
UDP-N-acetylmuramate from Fructose-6-phosphate Biosynthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Histidine metabolism
• beta-Alanine metabolism
• Urea cycle and metabolism of amino groups
• Alanine and aspartate metabolism
• Glycine, serine and threonine metabolism
• Valine, leucine and isoleucine biosynthesis
• Arginine and proline metabolism
• Glutathione metabolism
• Nucleotide sugars metabolism
• Aminosugars metabolism
• Butanoate metabolism
• C5-Branched dibasic acid metabolism
• Pantothenate and CoA biosynthesis
• Biosynthesis of alkaloids derived from histidine and purine

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
pyruvate fermentation to (R)-acetoin II	2	2	1
glutathione degradation (DUG pathway)	2	2	1
N-acetylglucosamine degradation I	2	2	1
pyruvate fermentation to (R)-acetoin I	3	3	1
glycine cleavage	3	3	1
N-acetylglucosamine degradation II	3	3	1
glycine biosynthesis II	3	3	1
pyruvate fermentation to (S)-acetoin	3	3	1
muropeptide degradation	4	4	1
L-valine biosynthesis	4	4	1
superpathway of (R,R)-butanediol biosynthesis	5	5	1
pyruvate fermentation to isobutanol (engineered)	5	4	1
superpathway of N-acetylglucosamine, N-acetylmannosamine and N-acetylneuraminate degradation	6	6	1
superpathway of 2,3-butanediol biosynthesis	6	5	1
γ-glutamyl cycle	6	5	1
L-isoleucine biosynthesis IV	6	4	1
L-isoleucine biosynthesis I (from threonine)	7	7	1
L-isoleucine biosynthesis III	7	5	1
UDP-N-acetyl-D-galactosamine biosynthesis II	7	4	1
chitin degradation I (archaea)	7	2	1
L-isoleucine biosynthesis II	8	4	1
chitin derivatives degradation	8	4	1
superpathway of branched chain amino acid biosynthesis	17	17	2
superpathway of L-isoleucine biosynthesis I	13	13	1
superpathway of L-threonine metabolism	18	18	1
superpathway of N-acetylneuraminate degradation	22	22	1