Experiment set7IT024 for Pantoea sp. MT58

Survival; Treatment=FW300 (pH7.4); TreatmentDuration=24hrs; Outgrowth=LBkan50

Group: survival
Media: + Treatment=FW300 (pH7.4); TreatmentDuration=24hrs; Outgrowth=LBkan50
Culturing: MT058_ML2, tube, Aerobic, at 30 (C)
By: Mike Thorgersen on 7/11/22

Specific Phenotypes

For 10 genes in this experiment

For survival Treatment=FW300 (pH7.4); TreatmentDuration=24hrs; Outgrowth=LBkan50 in Pantoea sp. MT58

For survival Treatment=FW300 (pH7.4); TreatmentDuration=24hrs; Outgrowth=LBkan50 across organisms

SEED Subsystems

Subsystem	#Specific
Lipid A modifications	1
NAD and NADP cofactor biosynthesis global	1
NAD regulation	1
Pyruvate metabolism I: anaplerotic reactions, PEP	1
Redox-dependent regulation of nucleus processes	1
Rhamnose containing glycans	1
Serine-glyoxylate cycle	1
dTDP-rhamnose synthesis	1
linker unit-arabinogalactan synthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Lipopolysaccharide biosynthesis
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - ganglio series
• Nicotinate and nicotinamide metabolism
• Carotenoid biosynthesis - General
• Anthocyanin biosynthesis
• Glycolysis / Gluconeogenesis
• Citrate cycle (TCA cycle)
• Fructose and mannose metabolism
• Fatty acid biosynthesis
• Lysine biosynthesis
• Lysine degradation
• Histidine metabolism
• Tyrosine metabolism
• Phenylalanine metabolism
• Glutathione metabolism
• N-Glycan biosynthesis
• O-Glycan biosynthesis
• High-mannose type N-glycan biosynthesis
• O-Mannosyl glycan biosynthesis
• Nucleotide sugars metabolism
• Streptomycin biosynthesis
• Polyketide sugar unit biosynthesis
• Keratan sulfate biosynthesis
• Peptidoglycan biosynthesis
• Glycerolipid metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• Glycerophospholipid metabolism
• Ether lipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Glycosphingolipid biosynthesis - globo series
• Pyruvate metabolism
• 1- and 2-Methylnaphthalene degradation
• 1,4-Dichlorobenzene degradation
• Benzoate degradation via CoA ligation
• Ethylbenzene degradation
• Butanoate metabolism
• Carbon fixation in photosynthetic organisms
• Limonene and pinene degradation
• Diterpenoid biosynthesis
• Zeatin biosynthesis
• Caprolactam degradation
• Flavonoid biosynthesis
• Flavone and flavonol biosynthesis
• Alkaloid biosynthesis I
• Alkaloid biosynthesis II
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide backbone
• Biosynthesis of terpenoids and steroids

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
adenosine nucleotides degradation III	1	1	1
aldoxime degradation	3	1	1
dTDP-N-acetylthomosamine biosynthesis	4	4	1
dTDP-6-deoxy-α-D-allose biosynthesis	4	2	1
dTDP-β-D-fucofuranose biosynthesis	4	2	1
dTDP-N-acetylviosamine biosynthesis	4	2	1
NAD salvage pathway V (PNC V cycle)	5	3	1
dTDP-β-L-rhamnose biosynthesis	5	3	1
dTDP-3-acetamido-α-D-fucose biosynthesis	5	2	1
dTDP-α-D-mycaminose biosynthesis	5	2	1
dTDP-4-O-demethyl-β-L-noviose biosynthesis	5	2	1
dTDP-3-acetamido-3,6-dideoxy-α-D-glucose biosynthesis	5	2	1
dTDP-L-daunosamine biosynthesis	6	2	1
dTDP-α-D-ravidosamine and dTDP-4-acetyl-α-D-ravidosamine biosynthesis	6	2	1
dTDP-D-desosamine biosynthesis	6	2	1
dTDP-sibirosamine biosynthesis	6	2	1
NAD salvage pathway I (PNC VI cycle)	7	5	1
dTDP-β-L-digitoxose biosynthesis	7	3	1
dTDP-β-L-olivose biosynthesis	7	3	1
dTDP-β-L-mycarose biosynthesis	7	2	1
dTDP-β-L-megosamine biosynthesis	8	3	1
dTDP-β-L-4-epi-vancosamine biosynthesis	8	3	1
dTDP-α-D-olivose, dTDP-α-D-oliose and dTDP-α-D-mycarose biosynthesis	9	3	1
dTDP-α-D-forosamine biosynthesis	9	3	1
superpathway of enterobacterial common antigen biosynthesis	10	8	1
O-antigen building blocks biosynthesis (E. coli)	11	8	1
NAD salvage (plants)	11	5	1
gluconeogenesis I	13	12	1
superpathway of glyoxylate cycle and fatty acid degradation	14	11	1
C4 photosynthetic carbon assimilation cycle, PEPCK type	14	7	1
superpathway of NAD biosynthesis in eukaryotes	14	7	1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis	19	5	1
superpathway of novobiocin biosynthesis	19	3	1
superpathway of erythromycin biosynthesis	19	2	1
superpathway of megalomicin A biosynthesis	22	3	1
superpathway of dTDP-glucose-derived antibiotic building blocks biosynthesis	23	3	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	11	1