Experiment set19IT085 for Escherichia coli BW25113

Compare to:

Papa dilution 10-1 cacl2 maltose

Group: phage
Media: LB_plus_SM_buffer + Papa (0.1 MOI)
Culturing: Keio_ML9a, 48 well microplate; Tecan Infinite F200, Aerobic, at 37 (C), shaken=orbital
By: Vivek on 19-Jan-17
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 38 genes in this experiment

For phage Papa in Escherichia coli BW25113

For phage Papa across organisms

SEED Subsystems

Subsystem #Specific
Alkylphosphonate utilization 6
Transport of Nickel and Cobalt 3
Anaerobic respiratory reductases 1
Branched-Chain Amino Acid Biosynthesis 1
Fermentations: Mixed acid 1
LOS core oligosaccharide biosynthesis 1
Maltose and Maltodextrin Utilization 1
Methionine Biosynthesis 1
Murein hydrolase regulation and cell death 1
Orphan regulatory proteins 1
RNA 3'-terminal phosphate cyclase 1
Siderophore Enterobactin 1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
4-aminobutanoate degradation III 2 2 2
4-aminobutanoate degradation II 2 2 2
methylphosphonate degradation I 5 5 4
superpathway of 4-aminobutanoate degradation 3 3 2
(aminomethyl)phosphonate degradation 8 8 5
methylphosphonate degradation II 5 3 3
4-aminobutanoate degradation I 2 2 1
D-xylose degradation to ethylene glycol (engineered) 4 3 2
S-methyl-L-methionine cycle 2 1 1
salicylate biosynthesis I 2 1 1
L-lysine degradation IV 5 2 2
2,3-dihydroxybenzoate biosynthesis 3 3 1
L-lysine degradation X 6 5 2
salicylate biosynthesis II 3 2 1
L-methionine salvage from L-homocysteine 3 2 1
L-lysine degradation III 6 2 2
L-lysine degradation I 7 7 2
D-xylose degradation IV 7 3 2
L-valine biosynthesis 4 4 1
guanosine ribonucleotides de novo biosynthesis 4 4 1
dipicolinate biosynthesis 4 3 1
GABA shunt I 4 3 1
GABA shunt II 4 3 1
L-ornithine biosynthesis I 5 5 1
pyruvate fermentation to isobutanol (engineered) 5 4 1
dZTP biosynthesis 5 3 1
D-xylose degradation III 5 1 1
D-xylose degradation VI 5 1 1
D-xylose degradation V 5 1 1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation 11 11 2
superpathway of guanosine nucleotides de novo biosynthesis I 6 6 1
L-isoleucine biosynthesis IV 6 4 1
superpathway of L-arginine and L-ornithine degradation 13 13 2
2-carboxy-1,4-naphthoquinol biosynthesis 7 7 1
L-isoleucine biosynthesis I (from threonine) 7 7 1
L-lysine biosynthesis VI 7 6 1
L-lysine biosynthesis III 7 6 1
glyphosate degradation III 7 4 1
L-isoleucine biosynthesis III 7 4 1
4-aminobutanoate degradation V 7 3 1
superpathway of guanosine nucleotides de novo biosynthesis II 8 8 1
L-isoleucine biosynthesis II 8 4 1
L-valine degradation I 8 4 1
4-hydroxyphenylacetate degradation 8 2 1
superpathway of branched chain amino acid biosynthesis 17 17 2
nicotine degradation I (pyridine pathway) 17 6 2
L-lysine biosynthesis I 9 9 1
superpathway of demethylmenaquinol-8 biosynthesis I 9 9 1
L-arginine biosynthesis I (via L-ornithine) 9 9 1
superpathway of demethylmenaquinol-6 biosynthesis I 9 8 1
superpathway of demethylmenaquinol-9 biosynthesis 9 8 1
L-arginine biosynthesis III (via N-acetyl-L-citrulline) 9 8 1
TCA cycle IV (2-oxoglutarate decarboxylase) 9 7 1
L-lysine biosynthesis II 9 6 1
Entner-Doudoroff pathway II (non-phosphorylative) 9 6 1
vibriobactin biosynthesis 9 4 1
superpathway of menaquinol-8 biosynthesis I 10 10 1
L-arginine biosynthesis II (acetyl cycle) 10 9 1
superpathway of menaquinol-10 biosynthesis 10 9 1
superpathway of menaquinol-12 biosynthesis 10 9 1
superpathway of menaquinol-13 biosynthesis 10 9 1
superpathway of menaquinol-9 biosynthesis 10 9 1
superpathway of menaquinol-11 biosynthesis 10 9 1
superpathway of menaquinol-6 biosynthesis 10 9 1
superpathway of menaquinol-7 biosynthesis 10 9 1
enterobactin biosynthesis 11 7 1
nicotine degradation II (pyrrolidine pathway) 11 2 1
bacillibactin biosynthesis 12 6 1
superpathway of L-isoleucine biosynthesis I 13 13 1
superpathway of purine nucleotide salvage 14 13 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II 15 13 1
superpathway of phylloquinol biosynthesis 15 7 1
superpathway of L-methionine salvage and degradation 16 6 1
superpathway of arginine and polyamine biosynthesis 17 16 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 purine nucleotides de novo biosynthesis I 21 21 1
superpathway of pentose and pentitol degradation 42 18 2
superpathway of L-lysine degradation 43 14 2
aspartate superpathway 25 24 1
superpathway of purine nucleotides de novo biosynthesis II 26 26 1
superpathway of histidine, purine, and pyrimidine biosynthesis 46 46 1
superpathway of chorismate metabolism 59 54 1