Experiment set2S734 for Escherichia coli ECOR27

Casamino-acids

Group: carbon source
Media: M9_plus_Casamino-acids + Casamino-acids (5 mg/mL)
Culturing: Ecoli_ECOR27_ML1, 48 well microplate, Aerobic, at 37 (C), shaken=double orbital, continuous, 205cpm
By: Lucas on 12/6/2024

Specific Phenotypes

For 25 genes in this experiment

For carbon source Casamino-acids in Escherichia coli ECOR27

For carbon source Casamino-acids across organisms

SEED Subsystems

Subsystem	#Specific
De Novo Purine Biosynthesis	6
De Novo Pyrimidine Synthesis	4
Coenzyme A Biosynthesis	3
NAD and NADP cofactor biosynthesis global	3
NAD regulation	3
Thiamin biosynthesis	3
Macromolecular synthesis operon	2
Pyridoxin (Vitamin B6) Biosynthesis	2
Auxin biosynthesis	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Tryptophan synthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Purine metabolism
• Alanine and aspartate metabolism
• Biosynthesis of plant hormones
• Pyrimidine metabolism
• Pantothenate and CoA biosynthesis
• Glutamate metabolism
• Phenylalanine, tyrosine and tryptophan biosynthesis
• beta-Alanine metabolism
• One carbon pool by folate
• Vitamin B6 metabolism
• Nicotinate and nicotinamide metabolism
• Biosynthesis of phenylpropanoids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine
• Nucleotide sugars metabolism
• Lipopolysaccharide biosynthesis
• Thiamine metabolism
• Nitrogen metabolism
• Drug metabolism - other enzymes
• Biosynthesis of siderophore group nonribosomal peptides

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
5-aminoimidazole ribonucleotide biosynthesis I	5	5	5
β-alanine biosynthesis III	1	1	1
L-glutamine degradation I	1	1	1
superpathway of 5-aminoimidazole ribonucleotide biosynthesis	6	6	5
5-aminoimidazole ribonucleotide biosynthesis II	5	5	4
UMP biosynthesis II	6	6	3
UMP biosynthesis I	6	6	3
phosphopantothenate biosynthesis I	4	4	2
thiamine diphosphate biosynthesis II (Bacillus)	2	2	1
4-amino-2-methyl-5-diphosphomethylpyrimidine biosynthesis I	2	2	1
tetrahydrofolate salvage from 5,10-methenyltetrahydrofolate	2	2	1
thiamine diphosphate biosynthesis I (E. coli)	2	2	1
L-glutamate biosynthesis I	2	2	1
L-glutamate degradation II	2	2	1
UMP biosynthesis III	6	5	3
NAD de novo biosynthesis I	6	5	3
NAD de novo biosynthesis IV (anaerobic)	6	5	3
superpathway of thiamine diphosphate biosynthesis I	10	10	4
inosine-5'-phosphate biosynthesis II	5	5	2
superpathway of thiamine diphosphate biosynthesis II	11	9	4
superpathway of purine nucleotides de novo biosynthesis I	21	21	7
superpathway of pyrimidine ribonucleotides de novo biosynthesis	9	9	3
superpathway of coenzyme A biosynthesis I (bacteria)	9	9	3
thiazole component of thiamine diphosphate biosynthesis I	6	6	2
inosine-5'-phosphate biosynthesis I	6	6	2
L-tryptophan biosynthesis	6	6	2
L-aspartate degradation II (aerobic)	3	3	1
L-citrulline degradation	3	3	1
L-aspartate degradation III (anaerobic)	3	3	1
thiamine diphosphate salvage V	3	3	1
ammonia assimilation cycle III	3	3	1
NAD de novo biosynthesis III	6	4	2
nicotine biosynthesis	9	3	3
thiamine diphosphate biosynthesis III (Staphylococcus)	3	1	1
thiamine diphosphate biosynthesis IV (eukaryotes)	3	1	1
pyridoxal 5'-phosphate biosynthesis I	7	7	2
thiazole component of thiamine diphosphate biosynthesis II	7	5	2
superpathway of thiamine diphosphate biosynthesis III (eukaryotes)	7	3	2
superpathway of L-aspartate and L-asparagine biosynthesis	4	4	1
L-arginine degradation V (arginine deiminase pathway)	4	3	1
NAD biosynthesis from 2-amino-3-carboxymuconate semialdehyde	4	3	1
phosphopantothenate biosynthesis III (archaea)	4	2	1
superpathway of nicotine biosynthesis	12	4	3
glutaminyl-tRNAgln biosynthesis via transamidation	4	1	1
L-asparagine biosynthesis III (tRNA-dependent)	4	1	1
superpathway of purine nucleotides de novo biosynthesis II	26	26	6
thiamine diphosphate salvage II	5	5	1
superpathway of coenzyme A biosynthesis II (plants)	10	5	2
superpathway of histidine, purine, and pyrimidine biosynthesis	46	46	9
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis	18	18	3
superpathway of pyridoxal 5'-phosphate biosynthesis and salvage	12	12	2
inosine-5'-phosphate biosynthesis III	6	5	1
L-canavanine degradation II	6	1	1
superpathway of L-tryptophan biosynthesis	13	13	2
guadinomine B biosynthesis	13	2	2
L-glutamate and L-glutamine biosynthesis	7	5	1
thiamine diphosphate salvage IV (yeast)	7	4	1
L-citrulline biosynthesis	8	6	1
thiamine diphosphate formation from pyrithiamine and oxythiamine (yeast)	8	4	1
aspartate superpathway	25	24	3
superpathway of aromatic amino acid biosynthesis	18	18	2
L-arginine biosynthesis I (via L-ornithine)	9	9	1
L-arginine biosynthesis III (via N-acetyl-L-citrulline)	9	8	1
allantoin degradation IV (anaerobic)	9	8	1
L-arginine biosynthesis IV (archaea)	9	4	1
NAD de novo biosynthesis II (from tryptophan)	9	3	1
L-arginine biosynthesis II (acetyl cycle)	10	9	1
superpathway of tetrahydrofolate biosynthesis and salvage	12	11	1
superpathway of L-citrulline metabolism	12	8	1
superpathway of NAD biosynthesis in eukaryotes	14	7	1
superpathway of arginine and polyamine biosynthesis	17	16	1
superpathway of chorismate metabolism	59	54	2