Experiment set22S215 for Agrobacterium fabrum C58

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

Group: in planta
Media: + Plant=Ntabacum; PlantTreatment=None; Sample=leaf; GrowthSubstrate=agar; Collection=Direct
Culturing: Agro_ML11b, Aerobic, at 28 (C), shaken=200 rpm
By: Mitchell Thompson on 6/16/2023

Specific Phenotypes

For 8 genes in this experiment

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

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

SEED Subsystems

Subsystem	#Specific
Arginine and Ornithine Degradation	1
Di-Inositol-Phosphate biosynthesis	1
Glycerol and Glycerol-3-phosphate Uptake and Utilization	1
Nudix proteins (nucleoside triphosphate hydrolases)	1
Two cell division clusters relating to chromosome partitioning	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
• Biosynthesis of steroids
• Ubiquinone and menaquinone biosynthesis
• Purine metabolism
• Arginine and proline metabolism
• gamma-Hexachlorocyclohexane degradation
• Tryptophan metabolism
• Benzoxazinone biosynthesis
• Streptomycin biosynthesis
• Lipopolysaccharide biosynthesis
• Inositol phosphate metabolism
• Glycerophospholipid metabolism
• Sphingolipid metabolism
• Naphthalene and anthracene degradation
• 1,4-Dichlorobenzene degradation
• Folate biosynthesis
• Limonene and pinene degradation
• Diterpenoid biosynthesis
• Brassinosteroid biosynthesis
• Carotenoid biosynthesis - General
• Phenylpropanoid biosynthesis
• Biosynthesis of phenylpropanoids
• Biosynthesis of terpenoids and steroids
• Biosynthesis of plant hormones
• Phosphatidylinositol signaling system

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-ornithine degradation I (L-proline biosynthesis)	1	1	1
L-arginine degradation VII (arginase 3 pathway)	2	2	1
glycerophosphodiester degradation	2	2	1
phosphatidylcholine resynthesis via glycerophosphocholine	2	1	1
myo-inositol biosynthesis	2	1	1
L-proline biosynthesis II (from arginine)	2	1	1
D-myo-inositol (1,4,5)-trisphosphate degradation	3	1	1
glycerol and glycerophosphodiester degradation	4	3	1
phospholipid remodeling (phosphatidylethanolamine, yeast)	4	2	1
superpathway of D-myo-inositol (1,4,5)-trisphosphate metabolism	6	1	1
phytate degradation I	14	2	2
anandamide biosynthesis I	12	3	1