Experiment set9S309 for Enterobacter sp. TBS_079

Potassium acetate carbon source

Group: carbon source
Media: RCH2_defined_noCarbon + Potassium acetate (10 mM)
Culturing: Enterobacter_TBS_079_ML3, microplate, Aerobic, at 30 (C)
By: Robin on 6/19/24
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)

Specific Phenotypes

For 11 genes in this experiment

For carbon source Potassium acetate in Enterobacter sp. TBS_079

For carbon source Potassium acetate across organisms

SEED Subsystems

Subsystem	#Specific
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate	2
DNA-binding regulatory proteins, strays	1
Histidine Degradation	1
Phosphate metabolism	1
Photorespiration (oxidative C2 cycle)	1
Redox-dependent regulation of nucleus processes	1
Serine-glyoxylate cycle	1
Stringent Response, (p)ppGpp metabolism	1
Trehalose Uptake and Utilization	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Purine metabolism
• Lipopolysaccharide biosynthesis
• Sphingolipid metabolism
• Glyoxylate and dicarboxylate metabolism
• Nicotinate and nicotinamide metabolism
• Fructose and mannose metabolism
• Ascorbate and aldarate metabolism
• Lysine biosynthesis
• Glutathione metabolism
• Starch and sucrose metabolism
• Nucleotide sugars metabolism
• Aminosugars metabolism
• Ether lipid metabolism
• Pyruvate metabolism
• 1,4-Dichlorobenzene degradation
• Thiamine metabolism
• Riboflavin metabolism
• Caprolactam degradation

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
trehalose degradation II (cytosolic)	2	2	1
trehalose degradation VI (periplasmic)	2	2	1
glycolate and glyoxylate degradation II	2	2	1
polyphosphate metabolism	2	2	1
glyoxylate cycle	6	6	2
chitin deacetylation	4	3	1
ppGpp metabolism	6	6	1
superpathway of glyoxylate bypass and TCA	12	11	2
superpathway of glyoxylate cycle and fatty acid degradation	14	11	2
superpathway of glycol metabolism and degradation	7	5	1
D-xylose degradation IV	7	3	1
L-arabinose degradation IV	8	3	1
chitin biosynthesis	9	6	1
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	25	2
crotonyl-CoA/ethylmalonyl-CoA/hydroxybutyryl-CoA cycle (engineered)	14	1	1
superpathway of pentose and pentitol degradation	42	16	1