Experiment set4S475 for Escherichia coli ECRC98

Bas36

Group: phage
Media: LB_plus_SM_buffer + Phage (10 MOI)
Culturing: Ecoli_ECRC98_ML1, 48 well microplate, Aerobic, at 25 (C), shaken=double orbital, continuous, 205cpm
By: Lucas on 5/17/2025
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 12 genes in this experiment

For phage Phage in Escherichia coli ECRC98

For phage Phage across organisms

SEED Subsystems

Subsystem	#Specific
Deoxyribose and Deoxynucleoside Catabolism	2
Capsular heptose biosynthesis	1
Entner-Doudoroff Pathway	1
Glutathione-regulated potassium-efflux system and associated functions	1
Glutathione: Biosynthesis and gamma-glutamyl cycle	1
Heat shock dnaK gene cluster extended	1
LOS core oligosaccharide biosynthesis	1
Pentose phosphate pathway	1
Potassium homeostasis	1
RNA processing and degradation, bacterial	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pentose phosphate pathway
• Pentose and glucuronate interconversions
• Galactose metabolism
• Pyrimidine metabolism
• Glutathione metabolism
• Inositol phosphate metabolism
• Drug metabolism - other enzymes
• Biosynthesis of ansamycins
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
pyrimidine ribonucleosides salvage I	3	3	2
glutathione biosynthesis	2	2	1
2-deoxy-α-D-ribose 1-phosphate degradation	3	3	1
2-deoxy-D-ribose degradation I	3	3	1
pentose phosphate pathway (oxidative branch) I	3	3	1
ophthalmate biosynthesis	3	2	1
GDP-D-glycero-α-D-manno-heptose biosynthesis	4	1	1
superpathway of pyrimidine ribonucleosides salvage	10	10	2
tRNA processing	10	10	2
ADP-L-glycero-β-D-manno-heptose biosynthesis	5	5	1
superpathway of pyrimidine deoxyribonucleosides degradation	6	6	1
γ-glutamyl cycle	6	5	1
formaldehyde oxidation I	6	3	1
superpathway of purine deoxyribonucleosides degradation	7	7	1
pentose phosphate pathway	8	8	1
Entner-Doudoroff pathway I	9	9	1
nucleoside and nucleotide degradation (archaea)	10	4	1
superpathway of glucose and xylose degradation	17	17	1
superpathway of glycolysis and the Entner-Doudoroff pathway	17	17	1
heterolactic fermentation	18	16	1