Experiment set5IT042 for Klebsiella michiganensis M5al

Potassium acetate carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + Potassium acetate (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: 1764 C4

Specific Phenotypes

For 5 genes in this experiment

For carbon source Potassium acetate in Klebsiella michiganensis M5al

For carbon source Potassium acetate across organisms

SEED Subsystems

Subsystem	#Specific
Ketoisovalerate oxidoreductase	1
Maltose and Maltodextrin Utilization	1
Photorespiration (oxidative C2 cycle)	1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate	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:

• Pyruvate metabolism
• Glyoxylate and dicarboxylate metabolism
• Glycolysis / Gluconeogenesis
• Fructose and mannose metabolism
• Ascorbate and aldarate metabolism
• Aminosugars metabolism
• Lipopolysaccharide biosynthesis
• Ether lipid metabolism
• Sphingolipid metabolism
• Propanoate metabolism
• Reductive carboxylate cycle (CO2 fixation)
• Thiamine metabolism
• Riboflavin metabolism
• Nicotinate and nicotinamide metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
acetate and ATP formation from acetyl-CoA III	1	1	1
acetate conversion to acetyl-CoA	1	1	1
glycolate and glyoxylate degradation II	2	2	1
chitin deacetylation	4	3	2
glyoxylate cycle	6	6	2
ethanol degradation II	3	3	1
superpathway of acetate utilization and formation	3	3	1
ethanol degradation IV	3	3	1
L-isoleucine biosynthesis V	3	2	1
starch degradation IV	3	2	1
ethanol degradation III	3	2	1
starch degradation III	4	4	1
2-methylcitrate cycle I	5	2	1
superpathway of glyoxylate bypass and TCA	12	11	2
L-isoleucine biosynthesis IV	6	4	1
2-methylcitrate cycle II	6	2	1
superpathway of bitter acids biosynthesis	18	3	3
lupulone and humulone biosynthesis	6	1	1
β-alanine biosynthesis II	6	1	1
adlupulone and adhumulone biosynthesis	6	1	1
colupulone and cohumulone biosynthesis	6	1	1
superpathway of glycol metabolism and degradation	7	7	1
superpathway of glyoxylate cycle and fatty acid degradation	14	11	2
D-xylose degradation IV	7	3	1
L-arabinose degradation IV	8	4	1
reductive glycine pathway of autotrophic CO2 fixation	9	6	1
cis-geranyl-CoA degradation	9	1	1
superpathway of coenzyme A biosynthesis II (plants)	10	5	1
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	25	2
crotonyl-CoA/ethylmalonyl-CoA/hydroxybutyryl-CoA cycle (engineered)	14	2	1
superpathway of pentose and pentitol degradation	42	21	1