Experiment set7IT040 for Paraburkholderia bryophila 376MFSha3.1

Sodium adipate carbon source

Group: carbon source
Media: MOPS minimal media_noCarbon + Sodium adipate (10 mM)
Culturing: Burk376_ML3_JBEI, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 1.9 generations
By: Allie Pearson on 8/26/19
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 12 genes in this experiment

For carbon source Sodium adipate in Paraburkholderia bryophila 376MFSha3.1

For carbon source Sodium adipate across organisms

SEED Subsystems

Subsystem	#Specific
Ammonia assimilation	1
Anaerobic respiratory reductases	1
DNA-binding regulatory proteins, strays	1
HMG CoA Synthesis	1
Methionine Biosynthesis	1
Methionine Degradation	1
Protocatechuate branch of beta-ketoadipate pathway	1
Staphylococcal pathogenicity islands SaPI	1
YeiH	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fatty acid metabolism
• Lysine degradation
• Tryptophan metabolism
• Benzoate degradation via CoA ligation

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
formate oxidation to CO2	1	1	1
oxalate degradation VI	4	1	1
oxalate degradation III	5	1	1
superpathway of C1 compounds oxidation to CO2	12	8	1
purine nucleobases degradation I (anaerobic)	15	6	1
purine nucleobases degradation II (anaerobic)	24	16	1