Experiment set13IT009 for Agrobacterium fabrum C58

Plant=Ntabacum; PlantTreatment=None; Sample=leaf; GrowthSubstrate=agar; Collection=Direct; Time=7days

Group: in planta
Media: + Plant=Ntabacum; PlantTreatment=None; Sample=leaf; GrowthSubstrate=agar; Collection=Direct; Time=7days
Culturing: Agro_ML11
By: Mitchell Thompson on 4/1/22

Specific Phenotypes

For 10 genes in this experiment

For in planta Plant=Ntabacum; PlantTreatment=None; Sample=leaf; GrowthSubstrate=agar; Collection=Direct; Time=7days in Agrobacterium fabrum C58

For in planta Plant=Ntabacum; PlantTreatment=None; Sample=leaf; GrowthSubstrate=agar; Collection=Direct; Time=7days across organisms

SEED Subsystems

Subsystem	#Specific
Arginine and Ornithine Degradation	2
Glycerol and Glycerol-3-phosphate Uptake and Utilization	1
Polysaccharide deacetylases	1
Predicted carbohydrate hydrolases	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Arginine and proline metabolism
• Urea cycle and metabolism of amino groups
• Glycerophospholipid metabolism
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-arginine degradation VII (arginase 3 pathway)	2	2	2
L-ornithine degradation I (L-proline biosynthesis)	1	1	1
putrescine biosynthesis III	2	2	1
glycerophosphodiester degradation	2	2	1
2-oxoglutarate-derived opine biosynthesis	2	2	1
L-proline biosynthesis II (from arginine)	2	1	1
phosphatidylcholine resynthesis via glycerophosphocholine	2	1	1
L-canavanine degradation I	2	1	1
L-arginine degradation I (arginase pathway)	3	2	1
superpathway of putrescine biosynthesis	4	4	1
glycerol and glycerophosphodiester degradation	4	3	1
L-arginine degradation VI (arginase 2 pathway)	4	3	1
phospholipid remodeling (phosphatidylethanolamine, yeast)	4	2	1
urea cycle	5	4	1
L-Nδ-acetylornithine biosynthesis	7	5	1
L-citrulline biosynthesis	8	7	1
superpathway of polyamine biosynthesis I	8	5	1
superpathway of polyamine biosynthesis II	8	3	1
superpathway of L-citrulline metabolism	12	9	1
anandamide biosynthesis I	12	3	1
superpathway of hyoscyamine (atropine) and scopolamine biosynthesis	16	4	1
superpathway of arginine and polyamine biosynthesis	17	14	1