Experiment set22S222 for Agrobacterium fabrum C58

Plant=Ntabacum; PlantTreatment=None; Sample=leaf; GrowthSubstrate=agar; Collection=Direct; Cocuture=C58C1OD2.0

Group: in planta
Media: + Plant=Ntabacum; PlantTreatment=None; Sample=leaf; GrowthSubstrate=agar; Collection=Direct; Cocuture=C58C1OD2.0
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; Cocuture=C58C1OD2.0 in Agrobacterium fabrum C58

For in planta Plant=Ntabacum; PlantTreatment=None; Sample=leaf; GrowthSubstrate=agar; Collection=Direct; Cocuture=C58C1OD2.0 across organisms

SEED Subsystems

Subsystem	#Specific
Orphan regulatory proteins	2
Agrobacterium opine transport	1
Arginine and Ornithine Degradation	1
Fatty Acid Biosynthesis FASII	1
Glycerol and Glycerol-3-phosphate Uptake and Utilization	1
Lipid A modifications	1
mycolic acid synthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fatty acid biosynthesis
• Arginine and proline metabolism
• Glycerophospholipid metabolism
• Biosynthesis of unsaturated fatty acids

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-ornithine degradation I (L-proline biosynthesis)	1	1	1
glycerophosphodiester degradation	2	2	1
L-arginine degradation VII (arginase 3 pathway)	2	2	1
L-proline biosynthesis II (from arginine)	2	1	1
phosphatidylcholine resynthesis via glycerophosphocholine	2	1	1
octanoyl-[acyl-carrier protein] biosynthesis (mitochondria, yeast)	12	12	3
gondoate biosynthesis (anaerobic)	4	4	1
glycerol and glycerophosphodiester degradation	4	3	1
phospholipid remodeling (phosphatidylethanolamine, yeast)	4	2	1
palmitate biosynthesis III	29	28	7
tetradecanoate biosynthesis (mitochondria)	25	23	6
palmitate biosynthesis II (type II fatty acid synthase)	31	29	7
palmitoleate biosynthesis I (from (5Z)-dodec-5-enoate)	9	8	2
oleate biosynthesis IV (anaerobic)	14	13	3
superpathway of fatty acids biosynthesis (E. coli)	53	49	11
8-amino-7-oxononanoate biosynthesis IV	5	5	1
fatty acid elongation -- saturated	5	5	1
superpathway of unsaturated fatty acids biosynthesis (E. coli)	20	18	4
cis-vaccenate biosynthesis	5	4	1
superpathway of fatty acid biosynthesis II (plant)	43	38	8
8-amino-7-oxononanoate biosynthesis I	11	9	2
even iso-branched-chain fatty acid biosynthesis	34	30	6
odd iso-branched-chain fatty acid biosynthesis	34	30	6
anteiso-branched-chain fatty acid biosynthesis	34	30	6
(5Z)-dodecenoate biosynthesis I	6	6	1
stearate biosynthesis II (bacteria and plants)	6	5	1
(5Z)-dodecenoate biosynthesis II	6	5	1
stearate biosynthesis IV	6	4	1
petroselinate biosynthesis	6	2	1
streptorubin B biosynthesis	34	20	5
biotin biosynthesis I	15	13	2
superpathway of fatty acid biosynthesis I (E. coli)	16	15	2
2-allylmalonyl-CoA biosynthesis	8	2	1
anandamide biosynthesis I	12	3	1
mycolate biosynthesis	205	21	5
superpathway of mycolate biosynthesis	239	22	5