Experiment set2S674 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 19 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	6
Macromolecular synthesis operon	2
NAD and NADP cofactor biosynthesis global	2
NAD regulation	2
Chorismate: Intermediate for synthesis of PAPA antibiotics, PABA, anthranilate, 3-hydroxyanthranilate and more.	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Pyridoxin (Vitamin B6) 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
• Pyrimidine metabolism
• Alanine and aspartate metabolism
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of plant hormones
• Glutamate metabolism
• One carbon pool by folate
• Drug metabolism - other enzymes
• Phenylalanine, tyrosine and tryptophan biosynthesis
• Vitamin B6 metabolism
• Nicotinate and nicotinamide metabolism
• Nitrogen metabolism
• Biosynthesis of phenylpropanoids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamine degradation I	1	1	1
UMP biosynthesis II	6	6	5
UMP biosynthesis I	6	6	5
5-aminoimidazole ribonucleotide biosynthesis I	5	5	4
superpathway of 5-aminoimidazole ribonucleotide biosynthesis	6	6	4
UMP biosynthesis III	6	5	4
5-aminoimidazole ribonucleotide biosynthesis II	5	5	3
inosine-5'-phosphate biosynthesis II	5	5	3
superpathway of pyrimidine ribonucleotides de novo biosynthesis	9	9	5
inosine-5'-phosphate biosynthesis I	6	6	3
L-glutamate biosynthesis I	2	2	1
tetrahydrofolate salvage from 5,10-methenyltetrahydrofolate	2	2	1
L-glutamate degradation II	2	2	1
4-amino-2-methyl-5-diphosphomethylpyrimidine biosynthesis I	2	2	1
superpathway of purine nucleotides de novo biosynthesis I	21	21	8
L-citrulline degradation	3	3	1
ammonia assimilation cycle III	3	3	1
L-aspartate degradation III (anaerobic)	3	3	1
L-aspartate degradation II (aerobic)	3	3	1
NAD de novo biosynthesis I	6	5	2
NAD de novo biosynthesis IV (anaerobic)	6	5	2
inosine-5'-phosphate biosynthesis III	6	5	2
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis	18	18	5
superpathway of purine nucleotides de novo biosynthesis II	26	26	7
superpathway of histidine, purine, and pyrimidine biosynthesis	46	46	12
guanosine ribonucleotides de novo biosynthesis	4	4	1
inosine 5'-phosphate degradation	4	4	1
superpathway of L-aspartate and L-asparagine biosynthesis	4	4	1
L-arginine degradation V (arginine deiminase pathway)	4	3	1
L-asparagine biosynthesis III (tRNA-dependent)	4	1	1
acridone alkaloid biosynthesis	4	1	1
glutaminyl-tRNAgln biosynthesis via transamidation	4	1	1
nicotine biosynthesis	9	3	2
4-hydroxy-2(1H)-quinolone biosynthesis	5	2	1
superpathway of guanosine nucleotides de novo biosynthesis I	6	6	1
L-tryptophan biosynthesis	6	6	1
NAD de novo biosynthesis III	6	4	1
superpathway of nicotine biosynthesis	12	4	2
L-canavanine degradation II	6	1	1
guadinomine B biosynthesis	13	2	2
pyridoxal 5'-phosphate biosynthesis I	7	7	1
L-glutamate and L-glutamine biosynthesis	7	5	1
ureide biosynthesis	7	5	1
superpathway of thiamine diphosphate biosynthesis III (eukaryotes)	7	3	1
superpathway of guanosine nucleotides de novo biosynthesis II	8	8	1
adenosine nucleotides degradation I	8	7	1
L-citrulline biosynthesis	8	6	1
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
superpathway of thiamine diphosphate biosynthesis I	10	10	1
L-arginine biosynthesis II (acetyl cycle)	10	9	1
superpathway of quinolone and alkylquinolone biosynthesis	10	2	1
purine nucleotides degradation II (aerobic)	11	11	1
superpathway of thiamine diphosphate biosynthesis II	11	9	1
superpathway of pyridoxal 5'-phosphate biosynthesis and salvage	12	12	1
superpathway of tetrahydrofolate biosynthesis and salvage	12	11	1
purine nucleotides degradation I (plants)	12	10	1
superpathway of L-citrulline metabolism	12	8	1
aspartate superpathway	25	24	2
superpathway of L-tryptophan biosynthesis	13	13	1
superpathway of purine nucleotide salvage	14	13	1
superpathway of arginine and polyamine biosynthesis	17	16	1
superpathway of aromatic amino acid biosynthesis	18	18	1
superpathway of purines degradation in plants	18	13	1
superpathway of chorismate metabolism	59	54	1