Experiment set15IT068 for Paraburkholderia graminis OAS925

Plant=Brachypodium_distachyon; PlantTreatment=None; Sample=soil; GrowthSubstrate=liquid_soil_extract; Collection=outgrowth_R2A_with_Tween_and_Cycloheximide; Time=21_days

Group: in planta
Media: + Plant=Brachypodium_distachyon; PlantTreatment=None; Sample=soil; GrowthSubstrate=liquid_soil_extract; Collection=outgrowth_R2A_with_Tween_and_Cycloheximide; Time=21_days
Culturing: Burkholderia_OAS925_ML2 (AMD1412), pot, at 26 (C), (Solid)
By: Marta Torres on 18-Apr-22

Specific Phenotypes

For 23 genes in this experiment

For in planta Plant=Brachypodium_distachyon; PlantTreatment=None; Sample=soil; GrowthSubstrate=liquid_soil_extract; Collection=outgrowth_R2A_with_Tween_and_Cycloheximide; Time=21_days in Paraburkholderia graminis OAS925

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

SEED Subsystems

Subsystem	#Specific
Colanic acid biosynthesis	4
Capsular heptose biosynthesis	1
Peptidyl-prolyl cis-trans isomerase	1
Potassium homeostasis	1
Ribitol, Xylitol, Arabitol, Mannitol and Sorbitol utilization	1
Thioredoxin-disulfide reductase	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Nucleotide sugars metabolism
• Fructose and mannose metabolism
• Glycerophospholipid metabolism
• Pentose and glucuronate interconversions
• Fatty acid biosynthesis
• Lysine degradation
• Histidine metabolism
• Tyrosine metabolism
• Phenylalanine metabolism
• Aminophosphonate metabolism
• Glutathione metabolism
• High-mannose type N-glycan biosynthesis
• Lipopolysaccharide biosynthesis
• Ether lipid metabolism
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - ganglio series
• 1- and 2-Methylnaphthalene degradation
• Benzoate degradation via CoA ligation
• Ethylbenzene degradation
• Butanoate metabolism
• Limonene and pinene degradation
• Diterpenoid biosynthesis
• Carotenoid biosynthesis - General
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Alkaloid biosynthesis II
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide backbone
• Biosynthesis of terpenoids and steroids
• T cell receptor signaling pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
GDP-L-fucose biosynthesis I (from GDP-D-mannose)	3	3	2
xylitol degradation I	2	2	1
D-mannose degradation I	2	1	1
D-mannose degradation II	2	1	1
ribitol degradation I	2	1	1
β-1,4-D-mannosyl-N-acetyl-D-glucosamine degradation	3	2	1
L-arabinose degradation II	3	2	1
mannitol biosynthesis	3	1	1
erythritol degradation II	3	1	1
colanic acid building blocks biosynthesis	11	11	3
GDP-mannose biosynthesis	4	4	1
mannitol degradation II	4	2	1
Salmonella enterica serotype O:8 O antigen biosynthesis	8	2	2
L-threitol degradation	4	1	1
superpathway of GDP-mannose-derived O-antigen building blocks biosynthesis	14	9	3
1,5-anhydrofructose degradation	5	2	1
Salmonella enterica serotype O:3,10 O antigen biosynthesis	5	1	1
Salmonella enterica serotype O:9,46 O antigen biosynthesis	6	1	1
Porphyromonas gingivalis O-LPS antigen biosynthesis	6	1	1
Salmonella enterica serotype O:9 O antigen biosynthesis	6	1	1
Salmonella enterica serotype O:4 O antigen biosynthesis (group B1)	6	1	1
Salmonella enterica serotype O:2 O antigen biosynthesis	6	1	1
β-(1,4)-mannan degradation	7	2	1
Salmonella enterica serotype O:9,46,27 O antigen biosynthesis	9	1	1
superpathway of pentose and pentitol degradation	42	21	3
succinoglycan biosynthesis	14	1	1