Experiment set3IT004 for Paraburkholderia graminis OAS925

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Plant=Brachypodium_distachyon; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_R2A_with_Tween_and_Cycloheximide; Time=21_days

Group: in planta
Media: + Plant=Brachypodium_distachyon; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_R2A_with_Tween_and_Cycloheximide; Time=21_days
Culturing: Burkholderia_OAS925_ML2, pot, Aerobic, at 26 (C), (Solid)
By: Marta on 10-Apr-21

Specific Phenotypes

For 12 genes in this experiment

For in planta Plant=Brachypodium_distachyon; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_R2A_with_Tween_and_Cycloheximide; Time=21_days in Paraburkholderia graminis OAS925

For in planta Plant=Brachypodium_distachyon; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_R2A_with_Tween_and_Cycloheximide; Time=21_days across organisms

SEED Subsystems

Subsystem #Specific
ABC transporter branched-chain amino acid (TC 3.A.1.4.1) 2
Bacterial Chemotaxis 2
Polyamine Metabolism 2
Aromatic amino acid degradation 1
Benzoate transport and degradation cluster 1
Fatty Acid Biosynthesis FASII 1
NAD and NADP cofactor biosynthesis global 1
mycolic acid synthesis 1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
L-tryptophan degradation I (via anthranilate) 3 3 1
octanoyl-[acyl-carrier protein] biosynthesis (mitochondria, yeast) 12 12 3
gondoate biosynthesis (anaerobic) 4 4 1
palmitate biosynthesis III 29 28 7
tetradecanoate biosynthesis (mitochondria) 25 23 6
palmitate biosynthesis II (type II fatty acid synthase) 31 29 7
palmitoleate biosynthesis I (from (5Z)-dodec-5-enoate) 9 8 2
oleate biosynthesis IV (anaerobic) 14 13 3
superpathway of fatty acids biosynthesis (E. coli) 53 48 11
fatty acid elongation -- saturated 5 5 1
superpathway of unsaturated fatty acids biosynthesis (E. coli) 20 17 4
8-amino-7-oxononanoate biosynthesis IV 5 4 1
cis-vaccenate biosynthesis 5 4 1
L-tryptophan degradation to 2-amino-3-carboxymuconate semialdehyde 5 3 1
3-hydroxy-4-methyl-anthranilate biosynthesis II 5 3 1
superpathway of fatty acid biosynthesis II (plant) 43 38 8
8-amino-7-oxononanoate biosynthesis I 11 9 2
odd iso-branched-chain fatty acid biosynthesis 34 30 6
anteiso-branched-chain fatty acid biosynthesis 34 30 6
even iso-branched-chain fatty acid biosynthesis 34 30 6
stearate biosynthesis II (bacteria and plants) 6 5 1
(5Z)-dodecenoate biosynthesis I 6 5 1
stearate biosynthesis IV 6 4 1
(5Z)-dodecenoate biosynthesis II 6 4 1
3-hydroxy-4-methyl-anthranilate biosynthesis I 6 2 1
petroselinate biosynthesis 6 2 1
streptorubin B biosynthesis 34 20 5
biotin biosynthesis I 15 13 2
superpathway of fatty acid biosynthesis I (E. coli) 16 15 2
3-hydroxyquinaldate biosynthesis 8 2 1
2-allylmalonyl-CoA biosynthesis 8 2 1
NAD de novo biosynthesis II (from tryptophan) 9 7 1
quinoxaline-2-carboxylate biosynthesis 10 4 1
L-tryptophan degradation IX 12 4 1
L-tryptophan degradation XII (Geobacillus) 12 4 1
superpathway of NAD biosynthesis in eukaryotes 14 8 1
L-tryptophan degradation III (eukaryotic) 15 6 1
L-tryptophan degradation XI (mammalian, via kynurenine) 23 7 1
phosalacine biosynthesis 25 6 1
phosphinothricin tripeptide biosynthesis 25 6 1
superpathway of aromatic compound degradation via 3-oxoadipate 35 19 1
mycolate biosynthesis 205 25 5
superpathway of aromatic compound degradation via 2-hydroxypentadienoate 42 13 1
superpathway of mycolate biosynthesis 239 26 5