Experiment set5S548 for Enterobacter sp. TBS_079

0.1X LB plate, 1:1 coculture with Agromyces sp. SAI_196

Group: mixed community
Media: LB (0.1x) + Mixed culture; Agromyces sp. SAI_196 1:1 starting OD to Enterobacter_TBS_079_ML3; Collection-direct
Culturing: Enterobacter_TBS_079_ML3, agar plate, Aerobic, at 30 (C), (Solid)
By: Robin on 3/19/24
Media components: 1 g/L Tryptone, 0.5 g/L Yeast Extract, 0.5 g/L Sodium Chloride (final concentrations)

Specific Phenotypes

For 23 genes in this experiment

For mixed community Mixed culture; Agromyces sp. SAI_196 1:1 starting OD to Enterobacter_TBS_079_ML3; Collection-direct in Enterobacter sp. TBS_079

For mixed community Mixed culture; Agromyces sp. SAI_196 1:1 starting OD to Enterobacter_TBS_079_ML3; Collection-direct across organisms

SEED Subsystems

Subsystem	#Specific
NAD and NADP cofactor biosynthesis global	3
NAD regulation	3
Bacterial Chemotaxis	2
Periplasmic disulfide interchange	2
Alkylphosphonate utilization	1
Biogenesis of c-type cytochromes	1
DNA-replication	1
Flagellum	1
Methionine Biosynthesis	1
Orphan regulatory proteins	1
Phosphate metabolism	1
PnuC-like transporters	1
Stringent Response, (p)ppGpp metabolism	1
Transcription factors bacterial	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Nicotinate and nicotinamide metabolism
• Purine metabolism
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Glycolysis / Gluconeogenesis
• Fatty acid metabolism
• Alanine and aspartate metabolism
• Glycine, serine and threonine metabolism
• Methionine metabolism
• Tyrosine metabolism
• Lipopolysaccharide biosynthesis
• Pyruvate metabolism
• 1- and 2-Methylnaphthalene degradation
• 3-Chloroacrylic acid degradation
• Butanoate metabolism
• Folate biosynthesis
• Retinol metabolism
• Metabolism of xenobiotics by cytochrome P450
• Drug metabolism - cytochrome P450
• Biosynthesis of plant hormones
• mTOR signaling pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
ethanol degradation I	2	2	2
NAD salvage pathway IV (from nicotinamide riboside)	2	2	2
acetaldehyde biosynthesis I	1	1	1
pyruvate fermentation to ethanol III	3	3	2
pyruvate fermentation to ethanol I	3	3	2
pyruvate fermentation to ethanol II	2	2	1
L-threonine degradation IV	2	2	1
periplasmic disulfide bond reduction	2	2	1
polyphosphate metabolism	2	2	1
NAD biosynthesis from nicotinamide	2	1	1
ethanolamine utilization	5	4	2
acetylene degradation (anaerobic)	5	4	2
ethanol degradation II	3	3	1
2-deoxy-α-D-ribose 1-phosphate degradation	3	3	1
2-deoxy-D-ribose degradation I	3	3	1
NAD de novo biosynthesis I	6	5	2
NAD de novo biosynthesis IV (anaerobic)	6	5	2
L-leucine degradation III	3	2	1
L-methionine degradation III	3	2	1
S-adenosyl-L-methionine salvage II	3	2	1
L-valine degradation II	3	2	1
L-isoleucine degradation II	3	2	1
2-hydroxypenta-2,4-dienoate degradation	3	1	1
2-aminoethylphosphonate degradation I	3	1	1
sulfoacetaldehyde degradation IV	3	1	1
S-adenosyl-L-methionine salvage I	4	4	1
phytol degradation	4	3	1
NAD biosynthesis from 2-amino-3-carboxymuconate semialdehyde	4	3	1
L-phenylalanine degradation III	4	2	1
L-methionine biosynthesis III	4	2	1
L-tyrosine degradation III	4	2	1
salidroside biosynthesis	4	2	1
superpathway of fermentation (Chlamydomonas reinhardtii)	9	9	2
nicotine biosynthesis	9	3	2
superpathway of NAD biosynthesis in eukaryotes	14	7	3
L-methionine biosynthesis I	5	5	1
pyruvate fermentation to isobutanol (engineered)	5	4	1
(S)-propane-1,2-diol degradation	5	3	1
seleno-amino acid biosynthesis (plants)	5	3	1
phenylethanol biosynthesis	5	2	1
catechol degradation I (meta-cleavage pathway)	5	1	1
ppGpp metabolism	6	6	1
superpathway of pyrimidine deoxyribonucleosides degradation	6	6	1
NAD de novo biosynthesis III	6	5	1
L-methionine biosynthesis II	6	5	1
superpathway of nicotine biosynthesis	12	4	2
triethylamine degradation	6	1	1
superpathway of Clostridium acetobutylicum solventogenic fermentation	13	6	2
noradrenaline and adrenaline degradation	13	4	2
superpathway of purine deoxyribonucleosides degradation	7	7	1
3-methylbutanol biosynthesis (engineered)	7	6	1
serotonin degradation	7	3	1
toluene degradation V (aerobic) (via toluene-cis-diol)	7	1	1
toluene degradation I (aerobic) (via o-cresol)	7	1	1
catechol degradation II (meta-cleavage pathway)	7	1	1
mixed acid fermentation	16	16	2
superpathway of L-homoserine and L-methionine biosynthesis	8	8	1
butanol and isobutanol biosynthesis (engineered)	8	3	1
3-phenylpropanoate and 3-(3-hydroxyphenyl)propanoate degradation	8	2	1
p-cumate degradation	8	1	1
aspartate superpathway	25	24	3
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation	17	8	2
superpathway of S-adenosyl-L-methionine biosynthesis	9	9	1
superpathway of L-methionine biosynthesis (transsulfuration)	9	9	1
heterolactic fermentation	18	15	2
NAD de novo biosynthesis II (from tryptophan)	9	3	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	18	2
meta cleavage pathway of aromatic compounds	10	1	1
superpathway of N-acetylneuraminate degradation	22	19	2
cytochrome c biogenesis (system I type)	11	4	1
p-cymene degradation	11	1	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	10	1
naphthalene degradation to acetyl-CoA	12	2	1
L-tryptophan degradation IX	12	1	1
L-tryptophan degradation XII (Geobacillus)	12	1	1
toluene degradation IV (aerobic) (via catechol)	13	1	1
L-tryptophan degradation V (side chain pathway)	13	1	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II	15	13	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	18	1
superpathway of L-threonine metabolism	18	16	1
mandelate degradation to acetyl-CoA	18	3	1
superpathway of anaerobic sucrose degradation	19	17	1
superpathway of seleno-compound metabolism	19	6	1
superpathway of aerobic toluene degradation	30	4	1
superpathway of aromatic compound degradation via 3-oxoadipate	35	7	1
superpathway of aromatic compound degradation via 2-hydroxypentadienoate	42	6	1