Experiment set19IT069 for Pseudomonas putida KT2440

Growth at pH6 and carbon source Trisodium citrate dihydrate

Group: pH
Media: soilextract_PNNL_Prosser_PlotA_B_20191220 + Trisodium citrate dihydrate (10 mM) + Ammonium chloride (10 mM) + MES (40 mM), pH=6
Culturing: Putida_ML5_PNNL, 96 deep-well microplate; 1 mL volume, Aerobic, at 30 (C)
By: Joshua Elmore on 1/6/20

Specific Phenotypes

For 5 genes in this experiment

For pH Trisodium citrate dihydrate in Pseudomonas putida KT2440

For pH Trisodium citrate dihydrate across organisms

SEED Subsystems

Subsystem	#Specific
Glycolysis and Gluconeogenesis	1
Glycolysis and Gluconeogenesis, including Archaeal enzymes	1
Pyruvate metabolism I: anaplerotic reactions, PEP	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pyruvate metabolism
• Reductive carboxylate cycle (CO2 fixation)

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
glycolysis V (Pyrococcus)	10	7	1
glycolysis II (from fructose 6-phosphate)	11	9	1
gluconeogenesis I	13	11	1
glycolysis I (from glucose 6-phosphate)	13	10	1
superpathway of glycolysis and the Entner-Doudoroff pathway	17	14	1
superpathway of hexitol degradation (bacteria)	18	13	1
gluconeogenesis II (Methanobacterium thermoautotrophicum)	18	9	1
hexitol fermentation to lactate, formate, ethanol and acetate	19	14	1
superpathway of anaerobic sucrose degradation	19	13	1
superpathway of N-acetylneuraminate degradation	22	12	1
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	22	1
Methanobacterium thermoautotrophicum biosynthetic metabolism	56	21	1