Experiment set7S300 for Enterobacter sp. TBS_079

0.1X LB plate, Mixed culture; Pseudomonas lini TBS_028 1:1 starting OD to Enterobacter_TBS_079_ML3; Collection-direct

Group: mixed community
Media: LB (0.1x) + Mixed culture; Pseudomonas lini TBS_028 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 3/9/24
Media components: 1 g/L Tryptone, 0.5 g/L Yeast Extract, 0.5 g/L Sodium Chloride (final concentrations)

Specific Phenotypes

For 51 genes in this experiment

For mixed community Mixed culture; Pseudomonas lini TBS_028 1:1 starting OD to Enterobacter_TBS_079_ML3; Collection-direct in Enterobacter sp. TBS_079

For mixed community Mixed culture; Pseudomonas lini TBS_028 1:1 starting OD to Enterobacter_TBS_079_ML3; Collection-direct across organisms

SEED Subsystems

Subsystem	#Specific
Maltose and Maltodextrin Utilization	3
ABC transporter oligopeptide (TC 3.A.1.5.1)	2
Deoxyribose and Deoxynucleoside Catabolism	2
ATP-dependent RNA helicases, bacterial	1
Adenosyl nucleosidases	1
Conserved gene cluster associated with Met-tRNA formyltransferase	1
D-allose utilization	1
DNA-replication	1
Entner-Doudoroff Pathway	1
Glycogen metabolism	1
Glycolysis and Gluconeogenesis	1
Multidrug Resistance Efflux Pumps	1
Orphan regulatory proteins	1
Oxidative stress	1
Peptidoglycan Biosynthesis	1
Phosphate metabolism	1
Protein chaperones	1
Proteolysis in bacteria, ATP-dependent	1
Purine conversions	1
Queuosine-Archaeosine Biosynthesis	1
Stringent Response, (p)ppGpp metabolism	1
Sulfur oxidation	1
Transcription factors bacterial	1
Type IV pilus	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Purine metabolism
• Biosynthesis of alkaloids derived from histidine and purine
• Starch and sucrose metabolism
• Peptidoglycan biosynthesis
• Biosynthesis of plant hormones
• Glycolysis / Gluconeogenesis
• Pentose phosphate pathway
• Galactose metabolism
• Pyrimidine metabolism
• Lysine degradation
• Nucleotide sugars metabolism
• Streptomycin biosynthesis
• Glycosaminoglycan degradation
• Lipopolysaccharide biosynthesis
• Nicotinate and nicotinamide metabolism
• Biotin metabolism
• Folate biosynthesis
• Biosynthesis of phenylpropanoids
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from terpenoid and polyketide
• mTOR signaling pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
purine ribonucleosides degradation	6	6	6
S-methyl-5'-thioadenosine degradation II	1	1	1
adenine and adenosine salvage III	4	4	3
purine deoxyribonucleosides degradation I	4	4	3
purine deoxyribonucleosides degradation II	3	3	2
adenine and adenosine salvage V	3	3	2
superpathway of purine deoxyribonucleosides degradation	7	7	4
glycogen degradation I	8	8	4
xanthine and xanthosine salvage	2	2	1
polyphosphate metabolism	2	2	1
trehalose degradation I (low osmolarity)	2	2	1
adenine and adenosine salvage I	2	2	1
guanine and guanosine salvage I	2	2	1
trehalose degradation II (cytosolic)	2	2	1
glycogen degradation II	6	4	3
adenosine nucleotides degradation II	5	3	2
purine nucleotides degradation II (aerobic)	11	9	4
superpathway of pyrimidine deoxyribonucleosides degradation	6	6	2
superpathway of guanine and guanosine salvage	3	3	1
2-deoxy-α-D-ribose 1-phosphate degradation	3	3	1
trehalose degradation IV	3	3	1
pyrimidine deoxyribonucleosides degradation	3	3	1
GDP-α-D-glucose biosynthesis	3	2	1
trehalose degradation V	3	2	1
queuosine biosynthesis I (de novo)	4	4	1
muropeptide degradation	4	4	1
sucrose degradation III (sucrose invertase)	4	4	1
sucrose biosynthesis II	8	6	2
starch degradation V	4	3	1
inosine 5'-phosphate degradation	4	3	1
guanosine nucleotides degradation III	4	3	1
peptidoglycan maturation (meso-diaminopimelate containing)	12	6	3
starch degradation III	4	2	1
glucose and glucose-1-phosphate degradation	5	5	1
queuosine biosynthesis III (queuosine salvage)	5	3	1
nucleoside and nucleotide degradation (archaea)	10	4	2
ppGpp metabolism	6	6	1
5-oxo-L-proline metabolism	6	5	1
γ-glutamyl cycle	6	5	1
UDP-N-acetyl-D-glucosamine biosynthesis II	6	4	1
norspermidine biosynthesis	6	4	1
fluoroacetate and fluorothreonine biosynthesis	6	1	1
nucleoside and nucleotide degradation (halobacteria)	6	1	1
superpathway of purine nucleotide salvage	14	13	2
ureide biosynthesis	7	6	1
UDP-N-acetyl-D-galactosamine biosynthesis II	7	5	1
rhizobactin 1021 biosynthesis	7	2	1
chitin derivatives degradation	8	4	1
superpathway of polyamine biosynthesis III	8	4	1
peptidoglycan biosynthesis II (staphylococci)	17	12	2
peptidoglycan biosynthesis IV (Enterococcus faecium)	17	12	2
peptidoglycan biosynthesis V (β-lactam resistance)	17	11	2
1,3-propanediol biosynthesis (engineered)	9	7	1
chitin biosynthesis	9	6	1
peptidoglycan recycling II	10	7	1
glycolysis III (from glucose)	11	11	1
L-methionine salvage cycle III	11	10	1
baumannoferrin biosynthesis	11	2	1
peptidoglycan biosynthesis I (meso-diaminopimelate containing)	12	12	1
homolactic fermentation	12	11	1
peptidoglycan recycling I	14	14	1
Bifidobacterium shunt	15	12	1
peptidoglycan biosynthesis III (mycobacteria)	15	11	1
salinosporamide A biosynthesis	15	3	1
arsenic detoxification (mammals)	17	8	1
heterolactic fermentation	18	15	1