Experiment set3IT070 for Pseudomonas fluorescens SBW25-INTG

Growth at pH9 and carbon source Trisodium citrate dihydrate

Group: pH
Media: soilextract_PNNL_Prosser_PlotA_B_20191220 + Trisodium citrate dihydrate (10 mM) + Ammonium chloride (10 mM) + AMPSO (40 mM), pH=9
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1 mL volume, Aerobic, at 30 (C)
By: Joshua Elmore on 1/6/20

Specific Phenotypes

For 20 genes in this experiment

For pH Trisodium citrate dihydrate in Pseudomonas fluorescens SBW25-INTG

For pH Trisodium citrate dihydrate across organisms

SEED Subsystems

Subsystem	#Specific
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	2
High affinity phosphate transporter and control of PHO regulon	2
Phosphate metabolism	2
Arginine and Ornithine Degradation	1
Branched-Chain Amino Acid Biosynthesis	1
Cysteine Biosynthesis	1
Experimental tye	1
Glutamate dehydrogenases	1
Glycerol and Glycerol-3-phosphate Uptake and Utilization	1
Glycerol fermenation to 1,3-propanediol	1
Glycine and Serine Utilization	1
Heme and Siroheme Biosynthesis	1
Methionine Biosynthesis	1
Proline Synthesis	1
Pyruvate Alanine Serine Interconversions	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pentose and glucuronate interconversions
• Ascorbate and aldarate metabolism
• Glutamate metabolism
• Arginine and proline metabolism
• Starch and sucrose metabolism
• Nucleotide sugars metabolism
• Porphyrin and chlorophyll 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
UDP-α-D-glucuronate biosynthesis (from UDP-glucose)	1	1	1
L-glutamate biosynthesis III	1	1	1
arsenate detoxification III	2	2	1
UDP-α-D-xylose biosynthesis	2	1	1
glycerol degradation I	3	3	1
molybdenum cofactor biosynthesis	3	1	1
glycerol and glycerophosphodiester degradation	4	4	1
heme b biosynthesis II (oxygen-independent)	4	3	1
superpathway of heme b biosynthesis from uroporphyrinogen-III	6	4	1
arsenic detoxification (plants)	6	4	1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis	6	4	1
L-glutamate and L-glutamine biosynthesis	7	6	1
3,8-divinyl-chlorophyllide a biosynthesis II (anaerobic)	9	3	1
UDP-sugars interconversion	9	2	1
teichuronic acid biosynthesis (B. subtilis 168)	9	2	1
colanic acid building blocks biosynthesis	11	11	1
arsenic detoxification (yeast)	12	4	1
arsenic detoxification (mammals)	17	8	1
superpathway of bacteriochlorophyll a biosynthesis	26	5	1