Experiment set18S344 for Agrobacterium fabrum C58

Plant=Arabidopsis_col0; PlantTreatment=None; Sample=root; GrowthSubstrate=agar; Collection=Direct

Group: in planta
Media: + Plant=Arabidopsis_col0; PlantTreatment=None; Sample=root; GrowthSubstrate=agar; Collection=Direct
Culturing: Agro_ML11b
By: Mitchell Thompson on 6/16/23

Specific Phenotypes

For 12 genes in this experiment

For in planta Plant=Arabidopsis_col0; PlantTreatment=None; Sample=root; GrowthSubstrate=agar; Collection=Direct in Agrobacterium fabrum C58

For in planta Plant=Arabidopsis_col0; PlantTreatment=None; Sample=root; GrowthSubstrate=agar; Collection=Direct across organisms

SEED Subsystems

Subsystem	#Specific
Biogenesis of cbb3-type cytochrome c oxidases	1
HMG CoA Synthesis	1
Leucine Degradation and HMG-CoA Metabolism	1
Molybdenum cofactor biosynthesis	1
Orphan regulatory proteins	1
Peptidoglycan Biosynthesis	1
Serine-glyoxylate cycle	1
Terminal cytochrome C oxidases	1
Type IV pilus	1
cAMP signaling in bacteria	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Peptidoglycan biosynthesis
• Fructose and mannose metabolism
• Valine, leucine and isoleucine degradation
• Lysine degradation
• N-Glycan biosynthesis
• O-Glycan biosynthesis
• High-mannose type N-glycan biosynthesis
• O-Mannosyl glycan biosynthesis
• Keratan sulfate biosynthesis
• Lipopolysaccharide biosynthesis
• Glycerolipid metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Glycosphingolipid biosynthesis - globo series
• Glycosphingolipid biosynthesis - ganglio series
• Biotin metabolism
• Carotenoid biosynthesis - General
• Zeatin biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Flavone and flavonol biosynthesis

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-leucine degradation I	6	5	1
peptidoglycan biosynthesis IV (Enterococcus faecium)	17	12	2
peptidoglycan biosynthesis II (staphylococci)	17	12	2
peptidoglycan biosynthesis V (β-lactam resistance)	17	11	2
peptidoglycan biosynthesis I (meso-diaminopimelate containing)	12	11	1
peptidoglycan maturation (meso-diaminopimelate containing)	12	3	1
peptidoglycan biosynthesis III (mycobacteria)	15	11	1