Experiment set8IT063 for Ralstonia sp. UNC404CL21Col

Sebacic acid carbon source

Group: carbon source
Media: MOPS minimal media_noCarbon + Sebacic acid (10 mM)
Culturing: CL21_ML4_JBEI, tube, Aerobic, at 30 (C), shaken=200 rpm
Growth: about 3.1 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 14 genes in this experiment

For carbon source Sebacic acid in Ralstonia sp. UNC404CL21Col

For carbon source Sebacic acid across organisms

SEED Subsystems

Subsystem	#Specific
Alkanesulfonate assimilation	1
Biotin biosynthesis	1
Chorismate: Intermediate for synthesis of PAPA antibiotics, PABA, anthranilate, 3-hydroxyanthranilate and more.	1
Folate Biosynthesis	1
Phosphate metabolism	1
Pyruvate Alanine Serine Interconversions	1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate	1
Redox-dependent regulation of nucleus processes	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Folate biosynthesis
• Biosynthesis of phenylpropanoids
• Ascorbate and aldarate metabolism
• Alanine and aspartate metabolism
• Valine, leucine and isoleucine degradation
• Lysine biosynthesis
• beta-Alanine metabolism
• Glutathione metabolism
• Nucleotide sugars metabolism
• Lipopolysaccharide biosynthesis
• Glycerophospholipid metabolism
• Sphingolipid metabolism
• 2,4-Dichlorobenzoate degradation
• 1,4-Dichlorobenzene degradation
• Propanoate metabolism
• Vitamin B6 metabolism
• Nicotinate and nicotinamide metabolism
• Biotin metabolism
• Retinol metabolism
• Caprolactam degradation
• Alkaloid biosynthesis II

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
4-aminobenzoate biosynthesis I	2	2	2
L-glutamine degradation I	1	1	1
β-alanine degradation II	2	2	1
L-glutamate biosynthesis I	2	2	1
8-amino-7-oxononanoate biosynthesis III	2	1	1
4-aminobenzoate biosynthesis II	2	1	1
8-amino-7-oxononanoate biosynthesis II	2	1	1
ammonia assimilation cycle III	3	3	1
β-alanine biosynthesis II	6	5	2
L-asparagine biosynthesis III (tRNA-dependent)	4	4	1
glutaminyl-tRNAgln biosynthesis via transamidation	4	3	1
8-amino-7-oxononanoate biosynthesis IV	5	5	1
superpathway of coenzyme A biosynthesis II (plants)	10	9	2
superpathway of tetrahydrofolate biosynthesis	10	9	2
acrylate degradation I	5	3	1
propanoyl-CoA degradation II	5	3	1
superpathway of candicidin biosynthesis	11	3	2
superpathway of tetrahydrofolate biosynthesis and salvage	12	11	2
biotin biosynthesis II	6	5	1
L-glutamate and L-glutamine biosynthesis	7	7	1
L-citrulline biosynthesis	8	7	1
vitamin B6 degradation I	9	1	1
chloramphenicol biosynthesis	9	1	1
8-amino-7-oxononanoate biosynthesis I	11	9	1
superpathway of L-citrulline metabolism	12	9	1
biotin biosynthesis I	15	13	1
superpathway of chorismate metabolism	59	44	2