Experiment set31S528 for Burkholderia phytofirmans PsJN

Plant=switchgrass; PlantTreatment=high_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=LB_with_kan50; Time=3weeks; NumberPlantsPooled=10

Group: in planta
Media: + Plant=switchgrass; PlantTreatment=high_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=LB_with_kan50; Time=3weeks; NumberPlantsPooled=10
Culturing: BFirm_ML3b
By: Robin on 12-Sep-23

Specific Phenotypes

For 22 genes in this experiment

For in planta Plant=switchgrass; PlantTreatment=high_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=LB_with_kan50; Time=3weeks; NumberPlantsPooled=10 in Burkholderia phytofirmans PsJN

For in planta Plant=switchgrass; PlantTreatment=high_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=LB_with_kan50; Time=3weeks; NumberPlantsPooled=10 across organisms

SEED Subsystems

Subsystem	#Specific
Bacterial Chemotaxis	2
Trehalose Biosynthesis	2
D-galactonate catabolism	1
D-ribose utilization	1
DNA repair, UvrABC system	1
DNA repair, bacterial MutL-MutS system	1
Glutathione: Biosynthesis and gamma-glutamyl cycle	1
Maltose and Maltodextrin Utilization	1
Molybdenum cofactor biosynthesis	1
Purine conversions	1
Ribitol, Xylitol, Arabitol, Mannitol and Sorbitol utilization	1
Translation elongation factor G family	1
Type IV pilus	1
Universal GTPases	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Starch and sucrose metabolism
• Pentose and glucuronate interconversions
• Fructose and mannose metabolism
• Galactose metabolism
• Ubiquinone and menaquinone biosynthesis
• Purine metabolism
• Histidine metabolism
• Tyrosine metabolism
• Tryptophan metabolism
• Benzoxazinone biosynthesis
• Glutathione metabolism
• Naphthalene and anthracene degradation
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of alkaloids derived from shikimate pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
bis(guanylyl molybdenum cofactor) biosynthesis	2	2	2
bis(guanylyl tungstenpterin) cofactor biosynthesis	1	1	1
adenosine nucleotides degradation III	1	1	1
trehalose biosynthesis IV	1	1	1
guanylyl molybdenum cofactor biosynthesis	1	1	1
glutathione biosynthesis	2	2	1
D-arabinitol degradation I	2	2	1
homoglutathione biosynthesis	2	1	1
D-galactonate degradation	3	3	1
ophthalmate biosynthesis	3	2	1
γ-glutamyl cycle	6	5	1
ergothioneine biosynthesis I (bacteria)	7	4	1
L-glucose degradation	7	3	1
glycogen biosynthesis III (from α-maltose 1-phosphate)	8	4	1
superpathway of pentose and pentitol degradation	42	22	1