Experiment set14S220 for Enterobacter sp. TBS_079

RCH2_defined_glucose plate, 1:1 coculture with Enterobacter_ludwigii_PH2

Group: mixed community
Media: RCH2_defined_glucose + RCH2_defined_glucose plate, 1:1 coculture with Enterobacter_ludwigii_PH2
Culturing: Enterobacter_TBS_079_ML3a, agar plate, Aerobic, at 30 (C), (Solid)
By: Robin on 4/17/25
Media components: 0.25 g/L Ammonium chloride, 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)

Specific Phenotypes

For 9 genes in this experiment

For mixed community RCH2_defined_glucose plate, 1:1 coculture with Enterobacter_ludwigii_PH2 in Enterobacter sp. TBS_079

For mixed community RCH2_defined_glucose plate, 1:1 coculture with Enterobacter_ludwigii_PH2 across organisms

SEED Subsystems

Subsystem	#Specific
Lysine Biosynthesis DAP Pathway	1
Threonine and Homoserine Biosynthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fructose and mannose metabolism
• Glycine, serine and threonine metabolism
• Lysine biosynthesis
• N-Glycan biosynthesis
• O-Glycan biosynthesis
• High-mannose type N-glycan biosynthesis
• O-Mannosyl glycan biosynthesis
• Keratan sulfate biosynthesis
• Lipopolysaccharide biosynthesis
• Peptidoglycan biosynthesis
• Glycerolipid metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Glycosphingolipid biosynthesis - globo series
• Glycosphingolipid biosynthesis - ganglio series
• Carotenoid biosynthesis - General
• Zeatin biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Flavone and flavonol biosynthesis
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-homoserine biosynthesis	3	3	1
dipicolinate biosynthesis	4	3	1
spermidine biosynthesis II	4	2	1
L-methionine biosynthesis IV	4	2	1
ectoine biosynthesis	5	3	1
superpathway of L-threonine biosynthesis	6	6	1
norspermidine biosynthesis	6	4	1
L-lysine biosynthesis III	7	6	1
L-lysine biosynthesis VI	7	6	1
3-dehydroquinate biosynthesis II (archaea)	7	3	1
cremeomycin biosynthesis	7	2	1
superpathway of L-homoserine and L-methionine biosynthesis	8	8	1
superpathway of polyamine biosynthesis III	8	4	1
grixazone biosynthesis	8	2	1
superpathway of L-methionine biosynthesis (transsulfuration)	9	9	1
L-lysine biosynthesis I	9	9	1
superpathway of S-adenosyl-L-methionine biosynthesis	9	9	1
L-lysine biosynthesis II	9	6	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	10	1
chorismate biosynthesis II (archaea)	12	8	1
superpathway of L-isoleucine biosynthesis I	13	13	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II	15	13	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	18	1
aspartate superpathway	25	24	1
platensimycin biosynthesis	26	6	1