Experiment set69S550 for Escherichia coli BW25113

RB68

Group: phage
Media: LB_plus_SM_buffer + MOI 10
Culturing: Keio_ML9a, 48 well microplate, Aerobic, at 37 (C), shaken=double orbital, continuous, 205cpm
By: Lucas on 12/4/24
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride, 100 mM Sodium Chloride, 4 mM Magnesium sulfate, 0.005 vol% Gelatin, 25 mM Tris hydrochloride

Specific Phenotypes

For 14 genes in this experiment

For phage MOI 10 in Escherichia coli BW25113

For phage MOI 10 across organisms

SEED Subsystems

Subsystem	#Specific
Glycine Biosynthesis	1
Glycine and Serine Utilization	1
LOS core oligosaccharide biosynthesis	1
Molybdenum cofactor biosynthesis	1
Nitrate and nitrite ammonification	1
Orphan regulatory proteins	1
Transport of Molybdenum	1
tRNA processing	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Glycine, serine and threonine metabolism
• Benzoate degradation via CoA ligation
• Butanoate metabolism
• Pentose phosphate pathway
• Fructose and mannose metabolism
• Ascorbate and aldarate metabolism
• C21-Steroid hormone metabolism
• Pyrimidine metabolism
• Lysine biosynthesis
• Bisphenol A degradation
• Nucleotide sugars metabolism
• Polyketide sugar unit biosynthesis
• Aminosugars metabolism
• Lipopolysaccharide biosynthesis
• Linoleic acid metabolism
• Tetrachloroethene degradation
• Nicotinate and nicotinamide metabolism
• Retinol metabolism
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide products
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-threonine degradation II	2	2	1
pseudouridine degradation	2	2	1
dipicolinate biosynthesis	4	3	1
D-xylose degradation to ethylene glycol (engineered)	4	3	1
adipate degradation	5	5	1
adipate biosynthesis	5	4	1
L-lysine biosynthesis VI	7	6	1
L-lysine biosynthesis III	7	6	1
D-xylose degradation IV	7	3	1
benzoyl-CoA degradation I (aerobic)	7	3	1
phenylacetate degradation I (aerobic)	9	9	1
L-lysine biosynthesis I	9	9	1
Entner-Doudoroff pathway II (non-phosphorylative)	9	6	1
L-lysine biosynthesis II	9	6	1
lipid A-core biosynthesis (E. coli K-12)	10	9	1
lipid A-core biosynthesis (Salmonella)	10	8	1
superpathway of phenylethylamine degradation	11	11	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
superpathway of L-threonine metabolism	18	16	1
superpathway of Kdo2-lipid A biosynthesis	25	24	1
aspartate superpathway	25	24	1
superpathway of pentose and pentitol degradation	42	18	1