Experiment set56IT028 for Escherichia coli BW25113

M9 Anaerobic Capecitabine 5000 uM

Group: stress
Media: M9 + Capecitabine (5000 uM) + Dimethyl Sulfoxide (1 vol%)
Culturing: Keio_ML9a, microplate, Anaerobic, at 37 (C)
By: Ben Guthrie on 2/8/22
Media components: 4 g/L D-Glucose, 2 mM Magnesium sulfate, 0.1 mM Calcium chloride, 12.8 g/L Sodium phosphate dibasic heptahydrate, 3 g/L Potassium phosphate monobasic, 0.5 g/L Sodium Chloride, 1 g/L Ammonium chloride

Specific Phenotypes

For 10 genes in this experiment

For stress Capecitabine in Escherichia coli BW25113

For stress Capecitabine across organisms

SEED Subsystems

Subsystem	#Specific
Proteasome bacterial	2
Proteolysis in bacteria, ATP-dependent	2
Arginine Biosynthesis extended	1
Deoxyribose and Deoxynucleoside Catabolism	1
Glycerol and Glycerol-3-phosphate Uptake and Utilization	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Lysine Biosynthesis DAP Pathway	1
MLST	1
Murein hydrolase regulation and cell death	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pyrimidine metabolism
• Lysine biosynthesis
• Arginine and proline metabolism
• Drug metabolism - other enzymes
• Urea cycle and metabolism of amino groups
• Purine metabolism
• Glycerolipid metabolism
• Nicotinate and nicotinamide metabolism
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
pyrimidine ribonucleosides degradation	2	2	2
pyrimidine deoxyribonucleosides degradation	3	3	2
pyrimidine ribonucleosides salvage II	2	2	1
superpathway of pyrimidine ribonucleosides degradation	5	4	2
superpathway of pyrimidine deoxyribonucleosides degradation	6	6	2
pyrimidine ribonucleosides salvage I	3	3	1
glycerol degradation I	3	3	1
NAD salvage pathway III (to nicotinamide riboside)	3	3	1
UTP and CTP dephosphorylation I	7	5	2
purine nucleotides degradation II (aerobic)	11	11	3
inosine 5'-phosphate degradation	4	4	1
guanosine nucleotides degradation III	4	4	1
glycerol and glycerophosphodiester degradation	4	4	1
guanosine nucleotides degradation II	4	4	1
adenosine nucleotides degradation I	8	7	2
purine nucleotides degradation I (plants)	12	10	3
guanosine nucleotides degradation I	4	3	1
L-ornithine biosynthesis I	5	5	1
L-arginine degradation II (AST pathway)	5	5	1
adenosine nucleotides degradation II	5	5	1
pyrimidine deoxyribonucleosides salvage	5	4	1
superpathway of guanosine nucleotides degradation (plants)	6	5	1
superpathway of purines degradation in plants	18	13	3
ureide biosynthesis	7	5	1
L-lysine biosynthesis I	9	9	1
L-arginine biosynthesis I (via L-ornithine)	9	9	1
superpathway of pyrimidine deoxyribonucleoside salvage	9	8	1
L-arginine biosynthesis III (via N-acetyl-L-citrulline)	9	8	1
tunicamycin biosynthesis	9	2	1
superpathway of pyrimidine ribonucleosides salvage	10	10	1
L-arginine biosynthesis II (acetyl cycle)	10	9	1
nucleoside and nucleotide degradation (archaea)	10	4	1
NAD salvage (plants)	11	5	1
superpathway of arginine and polyamine biosynthesis	17	16	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	18	1
aspartate superpathway	25	24	1