Experiment set10S164 for Escherichia coli BL21

Casamino-acids

Group: carbon source
Media: M9_plus_Casamino-acids + Casamino-acids (5 mg/mL)
Culturing: BL21_ML4, 48 well microplate, Aerobic, at 37 (C), shaken=double orbital, continuous, 205cpm
By: Lucas on 12/16/2024

Specific Phenotypes

For 4 genes in this experiment

For carbon source Casamino-acids in Escherichia coli BL21

For carbon source Casamino-acids across organisms

SEED Subsystems

Subsystem	#Specific
De Novo Purine Biosynthesis	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
NAD and NADP cofactor biosynthesis global	1
NAD regulation	1
Serine-glyoxylate cycle	1
TCA Cycle	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Propanoate metabolism
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of plant hormones
• Citrate cycle (TCA cycle)
• Purine metabolism
• Alanine and aspartate metabolism
• Geraniol degradation
• Tyrosine metabolism
• alpha-Linolenic acid metabolism
• Benzoate degradation via CoA ligation
• Ethylbenzene degradation
• C5-Branched dibasic acid metabolism
• One carbon pool by folate
• Reductive carboxylate cycle (CO2 fixation)
• Nicotinate and nicotinamide metabolism
• Limonene and pinene degradation
• Nitrogen metabolism
• Caprolactam degradation
• Alkaloid biosynthesis II
• Biosynthesis of phenylpropanoids
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of alkaloids derived from terpenoid and polyketide

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
tetrahydrofolate salvage from 5,10-methenyltetrahydrofolate	2	2	1
L-glutamate degradation II	2	2	1
L-aspartate degradation II (aerobic)	3	3	1
L-aspartate degradation III (anaerobic)	3	3	1
pyruvate fermentation to acetate V	3	2	1
pyruvate fermentation to acetate VI	3	2	1
superpathway of L-aspartate and L-asparagine biosynthesis	4	4	1
NAD biosynthesis from 2-amino-3-carboxymuconate semialdehyde	4	3	1
5-aminoimidazole ribonucleotide biosynthesis I	5	5	1
adipate degradation	5	4	1
adipate biosynthesis	5	3	1
superpathway of 5-aminoimidazole ribonucleotide biosynthesis	6	6	1
NAD de novo biosynthesis IV (anaerobic)	6	5	1
NAD de novo biosynthesis I	6	5	1
TCA cycle VIII (Chlamydia)	6	5	1
NAD de novo biosynthesis III	6	4	1
L-canavanine degradation II	6	1	1
incomplete reductive TCA cycle	7	5	1
TCA cycle V (2-oxoglutarate synthase)	9	7	1
TCA cycle II (plants and fungi)	9	7	1
NAD de novo biosynthesis II (from tryptophan)	9	3	1
nicotine biosynthesis	9	3	1
TCA cycle I (prokaryotic)	10	9	1
TCA cycle III (animals)	10	8	1
anaerobic energy metabolism (invertebrates, mitochondrial)	10	7	1
reductive TCA cycle I	11	8	1
superpathway of tetrahydrofolate biosynthesis and salvage	12	11	1
superpathway of glyoxylate bypass and TCA	12	11	1
reductive TCA cycle II	12	8	1
superpathway of nicotine biosynthesis	12	4	1
superpathway of NAD biosynthesis in eukaryotes	14	7	1
superpathway of anaerobic energy metabolism (invertebrates)	17	12	1
methylaspartate cycle	19	9	1
superpathway of purine nucleotides de novo biosynthesis I	21	21	1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	18	1
aspartate superpathway	25	24	1
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	25	1
Methanobacterium thermoautotrophicum biosynthetic metabolism	56	22	1