Experiment set58S329 for Escherichia coli BW25113

retron_Ec_48_control

Group: retron_ec_48_control
Media: LB + Kanamycin sulfate (0.05 mg/mL) + Chloramphenicol (34 0.034)
Culturing: Keio_ML9a, bioassay_dish, Aerobic, at 37 (C), (Solid)
By: Kate Miller/Brady Cress/Ben Adler on 10-Apr-23
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride

Specific Phenotypes

For 14 genes in this experiment

For retron_ec_48_control Kanamycin sulfate in Escherichia coli BW25113

For retron_ec_48_control Kanamycin sulfate across organisms

SEED Subsystems

Subsystem	#Specific
DNA-replication	2
D-gluconate and ketogluconates metabolism	1
DNA repair, bacterial	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Glycerol and Glycerol-3-phosphate Uptake and Utilization	1
Glycerol fermenation to 1,3-propanediol	1
Glycine and Serine Utilization	1
Peptidoglycan Biosynthesis	1
Periplasmic disulfide interchange	1
Potassium homeostasis	1
Pyruvate Alanine Serine Interconversions	1
RNA processing and degradation, bacterial	1
Threonine anaerobic catabolism gene cluster	1
Type IV pilus	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Peptidoglycan biosynthesis
• Lipopolysaccharide biosynthesis
• Fructose and mannose metabolism
• Alanine and aspartate metabolism
• Lysine degradation
• Cyanoamino acid metabolism
• N-Glycan biosynthesis
• O-Glycan biosynthesis
• High-mannose type N-glycan biosynthesis
• O-Mannosyl glycan biosynthesis
• Keratan sulfate biosynthesis
• Glycerolipid metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Glycosphingolipid biosynthesis - globo series
• Glycosphingolipid biosynthesis - ganglio series
• Biotin metabolism
• Carotenoid biosynthesis - General
• Zeatin biosynthesis
• Nitrogen metabolism
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Flavone and flavonol biosynthesis

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-asparagine biosynthesis II	1	1	1
superpathway of L-asparagine biosynthesis	2	2	1
arsenate detoxification III	2	2	1
glycerol degradation I	3	3	1
superpathway of L-aspartate and L-asparagine biosynthesis	4	4	1
glycerol and glycerophosphodiester degradation	4	4	1
peptidoglycan maturation (meso-diaminopimelate containing)	12	6	3
arsenic detoxification (plants)	6	5	1
peptidoglycan biosynthesis IV (Enterococcus faecium)	17	12	2
peptidoglycan biosynthesis II (staphylococci)	17	12	2
peptidoglycan biosynthesis V (β-lactam resistance)	17	11	2
lipid A-core biosynthesis (E. coli K-12)	10	9	1
peptidoglycan biosynthesis I (meso-diaminopimelate containing)	12	12	1
arsenic detoxification (yeast)	12	4	1
peptidoglycan biosynthesis III (mycobacteria)	15	11	1
arsenic detoxification (mammals)	17	8	1
superpathway of Kdo2-lipid A biosynthesis	25	24	1