Experiment set39IT045 for Pseudomonas putida KT2440

DL-3-Hydroxybutyric acid sodium salt carbon source

Group: carbon source
Media: MOPS minimal media_noCarbon + DL-3-Hydroxybutyric acid sodium salt (10 mM)
Culturing: Putida_ML5_JBEI, 24-well plate, Aerobic, at 30 (C), shaken=200 rpm
By: Allie Pearson on 28-Sep
Media components: 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 1.32 mM Potassium phosphate dibasic, 0.01 mM Iron (II) sulfate heptahydrate, 9.5 mM Ammonium chloride, 0.276 mM Aluminum potassium sulfate dodecahydrate, 0.0005 mM Calcium chloride, 0.525 mM Magnesium chloride hexahydrate, 50 mM Sodium Chloride, 3e-09 M Ammonium heptamolybdate tetrahydrate, 4e-07 M Boric Acid, 3e-08 M Cobalt chloride hexahydrate, 1e-08 M Copper (II) sulfate pentahydrate, 8e-08 M Manganese (II) chloride tetrahydrate, 1e-08 M Zinc sulfate heptahydrate

Specific Phenotypes

For 8 genes in this experiment

For carbon source DL-3-Hydroxybutyric acid sodium salt in Pseudomonas putida KT2440

For carbon source DL-3-Hydroxybutyric acid sodium salt across organisms

SEED Subsystems

Subsystem	#Specific
Polyhydroxybutyrate metabolism	2
ABC transporter oligopeptide (TC 3.A.1.5.1)	1
Choline and Betaine Uptake and Betaine Biosynthesis	1
RNA processing and degradation, bacterial	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Synthesis and degradation of ketone bodies
• Glycine, serine and threonine metabolism
• Butanoate metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
glycine betaine biosynthesis I (Gram-negative bacteria)	2	2	1
choline degradation I	2	2	1
glycine betaine biosynthesis II (Gram-positive bacteria)	2	2	1
ketolysis	3	3	1
choline-O-sulfate degradation	3	3	1
ketogenesis	5	3	1