Experiment set1H24 for Marinobacter adhaerens HP15

Defined media with L-Isoleucine as nitrogen source

Group: nitrogen source
Media: DinoMM_alphaKetoGlutAcid_NoNitrogen + L-Isoleucine (1 mM)
Culturing: Marino_ML2, 48 well microplate; Tecan Infinite F200, Aerobic, at 30 (C), shaken=orbital
By: Jordan on 9/5/2013
Media components: 20 g/L Sea salts, 0.1 g/L Potassium phosphate monobasic, 10 mM a-Ketoglutaric acid disodium salt hydrate, Wolfe's mineral mix (0.003 g/L Magnesium Sulfate Heptahydrate, 0.0015 g/L Nitrilotriacetic acid, 0.001 g/L Sodium Chloride, 0.0005 g/L Manganese (II) sulfate monohydrate, 0.0001 g/L Cobalt chloride hexahydrate, 0.0001 g/L Zinc sulfate heptahydrate, 0.0001 g/L Calcium chloride dihydrate, 0.0001 g/L Iron (II) sulfate heptahydrate, 2.5e-05 g/L Nickel (II) chloride hexahydrate, 2e-05 g/L Aluminum potassium sulfate dodecahydrate, 1e-05 g/L Copper (II) sulfate pentahydrate, 1e-05 g/L Boric Acid, 1e-05 g/L Sodium Molybdate Dihydrate, 0.0003 mg/L Sodium selenite pentahydrate), Wolfe's vitamin mix (0.05 mg/L Pyridoxine HCl, 0.025 mg/L 4-Aminobenzoic acid, 0.025 mg/L Lipoic acid, 0.025 mg/L Nicotinic Acid, 0.025 mg/L Riboflavin, 0.025 mg/L Thiamine HCl, 0.025 mg/L calcium pantothenate, 0.01 mg/L biotin, 0.01 mg/L Folic Acid, 0.0005 mg/L Cyanocobalamin)
Growth plate: 676 B7,B8

Specific Phenotypes

For 2 genes in this experiment

For nitrogen source L-Isoleucine in Marinobacter adhaerens HP15

For nitrogen source L-Isoleucine across organisms

SEED Subsystems

Subsystem	#Specific
Acetoin, butanediol metabolism	1
Branched-Chain Amino Acid Biosynthesis	1
Isoleucine degradation	1
Leucine Degradation and HMG-CoA Metabolism	1
Valine degradation	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Valine, leucine and isoleucine degradation
• Valine, leucine and isoleucine biosynthesis
• Butanoate metabolism
• C5-Branched dibasic acid metabolism
• Pantothenate and CoA biosynthesis
• Biosynthesis of alkaloids derived from histidine and purine

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
pyruvate fermentation to (R)-acetoin II	2	1	1
2-oxoisovalerate decarboxylation to isobutanoyl-CoA	3	3	1
pyruvate fermentation to (R)-acetoin I	3	2	1
pyruvate fermentation to (S)-acetoin	3	2	1
L-valine biosynthesis	4	4	1
pyruvate fermentation to isobutanol (engineered)	5	4	1
superpathway of (R,R)-butanediol biosynthesis	5	2	1
L-isoleucine biosynthesis IV	6	4	1
superpathway of 2,3-butanediol biosynthesis	6	2	1
L-isoleucine biosynthesis I (from threonine)	7	7	1
L-isoleucine biosynthesis III	7	4	1
L-isoleucine biosynthesis II	8	5	1
superpathway of branched chain amino acid biosynthesis	17	17	2
superpathway of L-isoleucine biosynthesis I	13	13	1
superpathway of L-threonine metabolism	18	12	1