Experiment set3S504 for Enterobacter sp. TBS_079

mutant library grown in Supernatant; Brevibacillus agri TBS_043 grown in LB

Group: supernatant
Media: + supernatant from Brevibacillus agri TBS_043 grown in LB (1 x)
Culturing: Enterobacter_TBS_079_ML3, tube, Aerobic, at 30 (C), shaken=200 rpm
By: Robin on 12/14/23

Specific Phenotypes

For 8 genes in this experiment

For supernatant Supernatant; Brevibacillus agri TBS_043 grown in LB in Enterobacter sp. TBS_079

For supernatant Supernatant; Brevibacillus agri TBS_043 grown in LB across organisms

SEED Subsystems

Subsystem	#Specific
Deoxyribose and Deoxynucleoside Catabolism	2
Terminal cytochrome d ubiquinol oxidases	2
Terminal cytochrome oxidases	2
Arginine Deiminase Pathway	1
Arginine and Ornithine Degradation	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
MLST	1
Polyamine Metabolism	1
Threonine and Homoserine Biosynthesis	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
• Glutamate metabolism
• Arginine and proline metabolism
• Glycolysis / Gluconeogenesis
• Pentose phosphate pathway
• Alanine and aspartate metabolism
• Cysteine metabolism
• Tyrosine metabolism
• Phenylalanine metabolism
• Phenylalanine, tyrosine and tryptophan biosynthesis
• Novobiocin biosynthesis
• Carbon fixation in photosynthetic organisms
• Nitrogen metabolism
• Alkaloid biosynthesis I
• Alkaloid biosynthesis II
• Drug metabolism - other enzymes
• Biosynthesis of phenylpropanoids
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
3-(4-hydroxyphenyl)pyruvate biosynthesis	1	1	1
L-aspartate biosynthesis	1	1	1
L-aspartate degradation I	1	1	1
pyrimidine deoxyribonucleosides degradation	3	3	2
superpathway of pyrimidine deoxyribonucleosides degradation	6	6	3
L-glutamate degradation II	2	2	1
malate/L-aspartate shuttle pathway	2	2	1
pyrimidine ribonucleosides degradation	2	2	1
L-tyrosine degradation II	2	1	1
chitobiose degradation	2	1	1
L-tryptophan degradation IV (via indole-3-lactate)	2	1	1
atromentin biosynthesis	2	1	1
L-tyrosine biosynthesis I	3	3	1
aerobic respiration III (alternative oxidase pathway)	3	3	1
2-deoxy-α-D-ribose 1-phosphate degradation	3	3	1
L-phenylalanine biosynthesis I	3	3	1
L-citrulline degradation	3	3	1
L-asparagine degradation III (mammalian)	3	2	1
L-phenylalanine degradation II (anaerobic)	3	2	1
indole-3-acetate biosynthesis VI (bacteria)	3	2	1
L-tyrosine degradation IV (to 4-methylphenol)	3	1	1
sulfolactate degradation III	3	1	1
(R)-cysteate degradation	3	1	1
superpathway of L-aspartate and L-asparagine biosynthesis	4	4	1
L-arginine degradation V (arginine deiminase pathway)	4	4	1
L-tyrosine degradation III	4	2	1
L-phenylalanine degradation III	4	2	1
L-tryptophan degradation VIII (to tryptophol)	4	2	1
trans-4-hydroxy-L-proline degradation I	5	3	1
superpathway of pyrimidine ribonucleosides degradation	5	2	1
superpathway of plastoquinol biosynthesis	5	1	1
L-phenylalanine degradation VI (reductive Stickland reaction)	5	1	1
L-tryptophan degradation XIII (reductive Stickland reaction)	5	1	1
L-tyrosine degradation I	5	1	1
4-hydroxybenzoate biosynthesis I (eukaryotes)	5	1	1
L-tyrosine degradation V (reductive Stickland reaction)	5	1	1
C4 photosynthetic carbon assimilation cycle, NAD-ME type	11	8	2
superpathway of L-threonine biosynthesis	6	6	1
purine ribonucleosides degradation	6	6	1
TCA cycle VIII (Chlamydia)	6	5	1
superpathway of sulfolactate degradation	6	2	1
coenzyme M biosynthesis II	6	1	1
superpathway of purine deoxyribonucleosides degradation	7	7	1
anaerobic energy metabolism (invertebrates, cytosol)	7	5	1
C4 photosynthetic carbon assimilation cycle, PEPCK type	14	9	2
superpathway of aromatic amino acid biosynthesis	18	18	2
superpathway of L-methionine biosynthesis (transsulfuration)	9	9	1
L-phenylalanine degradation IV (mammalian, via side chain)	9	4	1
allantoin degradation IV (anaerobic)	9	3	1
superpathway of L-tyrosine biosynthesis	10	10	1
superpathway of L-phenylalanine biosynthesis	10	10	1
nucleoside and nucleotide degradation (archaea)	10	4	1
rosmarinic acid biosynthesis I	10	1	1
(S)-reticuline biosynthesis I	11	1	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	10	1
indole-3-acetate biosynthesis II	12	3	1
superpathway of L-isoleucine biosynthesis I	13	13	1
guadinomine B biosynthesis	13	2	1
superpathway of rosmarinic acid biosynthesis	14	1	1
superpathway of anaerobic energy metabolism (invertebrates)	17	10	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	18	1
aspartate superpathway	25	24	1
anaerobic aromatic compound degradation (Thauera aromatica)	27	3	1
superpathway of chorismate metabolism	59	54	2
Methanobacterium thermoautotrophicum biosynthetic metabolism	56	22	1