Experiment set14IT024 for Pseudomonas fluorescens SBW25-INTG

Glucose (C) and Ammonium chloride (N); with MOPS; with Sodium chloride

Group: stress
Media: MME_noNitrogen_noCarbon + D-Glucose (10 mM) + Ammonium chloride (10 mM) + Sodium Chloride (400 mM), pH=7
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 33 (C), shaken=1200 rpm
By: Joshua Elmore on September 1, 2021
Media components: 9.1 mM Potassium phosphate dibasic trihydrate, 20 mM 3-(N-morpholino)propanesulfonic acid, 4.3 mM Sodium Chloride, 0.41 mM Magnesium Sulfate Heptahydrate, 0.07 mM Calcium chloride dihydrate, MME Trace Minerals (0.5 mg/L EDTA tetrasodium tetrahydrate salt, 2 mg/L Ferric chloride, 0.05 mg/L Boric Acid, 0.05 mg/L Zinc chloride, 0.03 mg/L copper (II) chloride dihydrate, 0.05 mg/L Manganese (II) chloride tetrahydrate, 0.05 mg/L Diammonium molybdate, 0.05 mg/L Cobalt chloride hexahydrate, 0.05 mg/L Nickel (II) chloride hexahydrate)

Specific Phenotypes

For 10 genes in this experiment

For stress D-Glucose in Pseudomonas fluorescens SBW25-INTG

For stress D-Glucose across organisms

SEED Subsystems

Subsystem	#Specific
Bacterial RNA-metabolizing Zn-dependent hydrolases	1
Cluster-based Subsystem Grouping Hypotheticals - perhaps Proteosome Related	1
Conserved gene cluster associated with Met-tRNA formyltransferase	1
D-gluconate and ketogluconates metabolism	1
Heat shock dnaK gene cluster extended	1
Pentose phosphate pathway	1
Phosphate metabolism	1
Proline, 4-hydroxyproline uptake and utilization	1
Ribosome biogenesis bacterial	1
Twin-arginine translocation system	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pentose phosphate pathway
• Fatty acid biosynthesis
• Lysine degradation
• Arginine and proline metabolism
• Histidine metabolism
• Tyrosine metabolism
• Phenylalanine metabolism
• Glutathione metabolism
• Lipopolysaccharide biosynthesis
• Glycerophospholipid metabolism
• Ether lipid metabolism
• Glycosphingolipid biosynthesis - ganglio series
• 1- and 2-Methylnaphthalene degradation
• Benzoate degradation via CoA ligation
• Ethylbenzene degradation
• Butanoate metabolism
• Limonene and pinene degradation
• Diterpenoid biosynthesis
• Carotenoid biosynthesis - General
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Alkaloid biosynthesis II
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide backbone
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
pentose phosphate pathway (oxidative branch) I	3	3	1
trans-4-hydroxy-L-proline degradation II	4	4	1
pentose phosphate pathway	8	8	1
superpathway of glucose and xylose degradation	17	16	1