Experiment set52S622 for Pseudomonas putida KT2440

Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days

Group: in planta
Media: + Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days
Culturing: Putida_ML5a, pot, at 24 (C), (Solid)
By: Marta Torres on 1-Jul-24

Specific Phenotypes

For 17 genes in this experiment

For in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days in Pseudomonas putida KT2440

For in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days across organisms

SEED Subsystems

Subsystem	#Specific
Ammonia assimilation	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Phosphate metabolism	1
Polyamine Metabolism	1
Terminal cytochrome d ubiquinol oxidases	1
Terminal cytochrome oxidases	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Glycolysis / Gluconeogenesis
• Glutamate metabolism
• Glycerolipid metabolism
• Glycerophospholipid metabolism
• 1,2-Dichloroethane degradation
• Propanoate metabolism
• Butanoate metabolism
• Methane metabolism
• Nitrogen 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-glutamate biosynthesis I	2	2	2
L-glutamine degradation II	1	1	1
L-glutamine degradation I	1	1	1
ammonia assimilation cycle III	3	3	2
phospholipid remodeling (phosphatidate, yeast)	2	1	1
palmitoleate biosynthesis III (cyanobacteria)	2	1	1
aerobic respiration III (alternative oxidase pathway)	3	3	1
oleate biosynthesis III (cyanobacteria)	3	2	1
glycine betaine degradation III	7	7	2
L-glutamate and L-glutamine biosynthesis	7	6	2
CDP-diacylglycerol biosynthesis I	4	4	1
L-asparagine biosynthesis III (tRNA-dependent)	4	4	1
CDP-diacylglycerol biosynthesis II	4	4	1
glutaminyl-tRNAgln biosynthesis via transamidation	4	3	1
CDP-diacylglycerol biosynthesis III	5	3	1
phosphatidate biosynthesis (yeast)	5	3	1
phosphatidylglycerol biosynthesis I	6	6	1
phosphatidylglycerol biosynthesis II	6	6	1
superpathway of phospholipid biosynthesis III (E. coli)	12	10	2
palmitoyl ethanolamide biosynthesis	6	2	1
superpathway of stearidonate biosynthesis (cyanobacteria)	6	2	1
diacylglycerol and triacylglycerol biosynthesis	7	3	1
stigma estolide biosynthesis	7	2	1
L-citrulline biosynthesis	8	7	1
anandamide biosynthesis II	8	2	1
superpathway of L-citrulline metabolism	12	9	1
anandamide biosynthesis I	12	3	1
superpathway of cardiolipin biosynthesis (bacteria)	13	9	1
superpathway of phospholipid biosynthesis II (plants)	28	10	2
plasmalogen biosynthesis I (aerobic)	16	1	1