Experiment set5IT072 for Paraburkholderia graminis OAS925

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

Group: in planta
Media: + Plant=Brachypodium_distachyon; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sterile_soil; Collection=outgrowth_R2A_with_Tween_and_Cycloheximide; Time=21_days
Culturing: Burkholderia_OAS925_ML2, pot, at 26 (C), (Solid)
By: Marta on 3-Jun-21

Specific Phenotypes

For 5 genes in this experiment

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

SEED Subsystems

Subsystem	#Specific
D-Galacturonate and D-Glucuronate Utilization	1
D-galactarate, D-glucarate and D-glycerate catabolism	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Peptidoglycan Biosynthesis	1
Soluble cytochromes and functionally related electron carriers	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Ascorbate and aldarate metabolism
• Glutamate metabolism
• D-Glutamine and D-glutamate metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
D-galactarate degradation II	3	3	1
D-glucarate degradation II	3	3	1
D-glucuronate degradation II	5	4	1
D-galacturonate degradation II	5	3	1
UDP-N-acetylmuramoyl-pentapeptide biosynthesis I (meso-diaminopimelate containing)	8	8	1
UDP-N-acetylmuramoyl-pentapeptide biosynthesis II (lysine-containing)	8	7	1
peptidoglycan biosynthesis I (meso-diaminopimelate containing)	12	12	1
peptidoglycan biosynthesis III (mycobacteria)	15	11	1
peptidoglycan biosynthesis II (staphylococci)	17	12	1
peptidoglycan biosynthesis IV (Enterococcus faecium)	17	12	1
peptidoglycan biosynthesis V (β-lactam resistance)	17	11	1
phosphinothricin tripeptide biosynthesis	25	6	1
phosalacine biosynthesis	25	6	1
superpathway of microbial D-galacturonate and D-glucuronate degradation	31	19	1