Experiment set8S563 for Erwinia tracheiphila SCR3

survival 4C, 24 hrs

Group: survival
Media:
Culturing: Erwinia_SCR3_ML3
By: Milo on 5-5-2025

Specific Phenotypes

For 15 genes in this experiment

SEED Subsystems

Subsystem	#Specific
2-phosphoglycolate salvage	1
Adenosyl nucleosidases	1
Chorismate: Intermediate for synthesis of PAPA antibiotics, PABA, anthranilate, 3-hydroxyanthranilate and more.	1
Copper homeostasis: copper tolerance	1
Deoxyribose and Deoxynucleoside Catabolism	1
Glycolate, glyoxylate interconversions	1
Lipid A modifications	1
Phosphate metabolism	1
Photorespiration (oxidative C2 cycle)	1
Purine conversions	1
Tryptophan synthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Glutamate metabolism
• Arginine and proline metabolism
• Nitrogen metabolism
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Purine metabolism
• Pyrimidine metabolism
• Phenylalanine, tyrosine and tryptophan biosynthesis
• D-Glutamine and D-glutamate metabolism
• Glyoxylate and dicarboxylate metabolism
• Nicotinate and nicotinamide metabolism
• Biosynthesis of phenylpropanoids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamate biosynthesis III	1	1	1
L-glutamate degradation X	1	1	1
L-glutamate biosynthesis II	1	1	1
adenosine nucleotides degradation III	1	1	1
L-glutamate degradation I	1	1	1
L-glutamine degradation I	1	1	1
purine deoxyribonucleosides degradation I	4	3	3
purine ribonucleosides degradation	6	6	4
purine deoxyribonucleosides degradation II	3	2	2
adenine and adenosine salvage III	4	4	2
L-glutamate biosynthesis I	2	2	1
adenine and adenosine salvage I	2	2	1
xanthine and xanthosine salvage	2	2	1
guanine and guanosine salvage I	2	2	1
superpathway of purine deoxyribonucleosides degradation	7	6	3
L-glutamate and L-glutamine biosynthesis	7	6	3
pyrimidine deoxyribonucleosides degradation	3	3	1
ammonia assimilation cycle III	3	3	1
L-alanine degradation II (to D-lactate)	3	2	1
adenine and adenosine salvage V	3	2	1
superpathway of guanine and guanosine salvage	3	2	1
ethene biosynthesis IV (engineered)	3	1	1
purine nucleotides degradation II (aerobic)	11	8	3
inosine 5'-phosphate degradation	4	3	1
GABA shunt I	4	2	1
guanosine nucleotides degradation III	4	2	1
acridone alkaloid biosynthesis	4	1	1
L-asparagine biosynthesis III (tRNA-dependent)	4	1	1
glutaminyl-tRNAgln biosynthesis via transamidation	4	1	1
adenosine nucleotides degradation II	5	3	1
nucleoside and nucleotide degradation (archaea)	10	4	2
4-hydroxy-2(1H)-quinolone biosynthesis	5	2	1
superpathway of pyrimidine deoxyribonucleosides degradation	6	6	1
L-tryptophan biosynthesis	6	5	1
nucleoside and nucleotide degradation (halobacteria)	6	2	1
fluoroacetate and fluorothreonine biosynthesis	6	1	1
superpathway of purine nucleotide salvage	14	13	2
ureide biosynthesis	7	3	1
L-glutamate degradation XI (reductive Stickland reaction)	7	2	1
4-aminobutanoate degradation V	7	1	1
L-citrulline biosynthesis	8	6	1
photorespiration I	9	5	1
photorespiration III	9	5	1
photorespiration II	10	6	1
L-glutamate degradation V (via hydroxyglutarate)	10	4	1
superpathway of quinolone and alkylquinolone biosynthesis	10	2	1
superpathway of L-citrulline metabolism	12	8	1
superpathway of L-tryptophan biosynthesis	13	12	1
salinosporamide A biosynthesis	15	3	1
arsenic detoxification (mammals)	17	8	1
superpathway of aromatic amino acid biosynthesis	18	17	1
methylaspartate cycle	19	9	1
superpathway of chorismate metabolism	59	50	1