Experiment set4S309 for Escherichia coli ECRC101

RB68

Group: phage
Media: LB_plus_SM_buffer + Phage (10 MOI)
Culturing: Ecoli_ECRC101_ML1, 48 well microplate, Aerobic, at 25 (C), shaken=double orbital, continuous, 205cpm
By: Lucas on 6/9/2025
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 16 genes in this experiment

For phage Phage in Escherichia coli ECRC101

For phage Phage across organisms

SEED Subsystems

Subsystem	#Specific
D-ribose utilization	2
Bacterial Cell Division	1
CBSS-562.2.peg.5158 SK3 including	1
Conserved gene cluster associated with Met-tRNA formyltransferase	1
DNA repair, bacterial	1
Deoxyribose and Deoxynucleoside Catabolism	1
Glycine cleavage system	1
Multidrug Resistance Efflux Pumps	1
Multidrug efflux pump in Campylobacter jejuni (CmeABC operon)	1
Orphan regulatory proteins	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:

• Tryptophan metabolism
• Pentose phosphate pathway
• Ubiquinone and menaquinone biosynthesis
• Histidine metabolism
• Tyrosine metabolism
• Benzoxazinone biosynthesis
• Aminosugars metabolism
• Ether lipid metabolism
• Naphthalene and anthracene degradation
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of siderophore group nonribosomal peptides
• Biosynthesis of alkaloids derived from shikimate pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
S-methyl-5'-thioadenosine degradation II	1	1	1
adenine and adenosine salvage III	4	4	3
adenine and adenosine salvage V	3	3	2
purine ribonucleosides degradation	6	6	3
ribose phosphorylation	2	2	1
adenine and adenosine salvage I	2	2	1
adenosine nucleotides degradation II	5	5	2
2-deoxy-D-ribose degradation I	3	3	1
purine nucleotides degradation II (aerobic)	11	11	2
peptidoglycan recycling II	10	7	1
nucleoside and nucleotide degradation (archaea)	10	4	1
L-methionine salvage cycle III	11	5	1
peptidoglycan recycling I	14	14	1
superpathway of purine nucleotide salvage	14	13	1