Experiment set5IT006 for Azospirillum brasilense Sp245

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L-Malic acid carbon source and no Nitrogen; normal Wolfe's minerals with nitroloacetic acid; 3 days

Group: nitrogen fixation
Media: RCH2_defined_noCarbon_minimalN + L-Malic acid (20 mM)
Culturing: AzoBra_ML2a, serum bottle, Anaerobic, at 30 (C), shaken=0 rpm
Growth: about 3.2 generations
By: Kelly Wetmore; Jordan Baker on 26-Mar-19
Media components: 0.1 g/L Potassium Chloride, 0.49 g/L Sodium phosphate monobasic monohydrate, 0.97 g/L Potassium phosphate dibasic, Wolfe's mineral mix (0.03 g/L Magnesium Sulfate Heptahydrate, 0.015 g/L Nitrilotriacetic acid, 0.01 g/L Sodium Chloride, 0.005 g/L Manganese (II) sulfate monohydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc sulfate heptahydrate, 0.001 g/L Calcium chloride dihydrate, 0.001 g/L Iron (II) sulfate heptahydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.0002 g/L Aluminum potassium sulfate dodecahydrate, 0.0001 g/L Copper (II) sulfate pentahydrate, 0.0001 g/L Boric Acid, 0.0001 g/L Sodium Molybdate Dihydrate, 0.003 mg/L Sodium selenite pentahydrate), Wolfe's vitamin mix (0.1 mg/L Pyridoxine HCl, 0.05 mg/L 4-Aminobenzoic acid, 0.05 mg/L Lipoic acid, 0.05 mg/L Nicotinic Acid, 0.05 mg/L Riboflavin, 0.05 mg/L Thiamine HCl, 0.05 mg/L calcium pantothenate, 0.02 mg/L biotin, 0.02 mg/L Folic Acid, 0.001 mg/L Cyanocobalamin)

Specific Phenotypes

For 11 genes in this experiment

For nitrogen fixation L-Malic acid in Azospirillum brasilense Sp245

For nitrogen fixation L-Malic acid across organisms

SEED Subsystems

Subsystem #Specific
Nitrogen fixation 7
Acetyl-CoA fermentation to Butyrate 2
Alanine biosynthesis 1
Cobalamin synthesis 1
Coenzyme B12 biosynthesis 1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
nitrogen fixation I (ferredoxin) 1 1 1
nitrogen fixation II (flavodoxin) 1 1 1
L-alanine biosynthesis III 1 1 1
L-cysteine degradation IV 1 1 1
adenosylcobalamin salvage from cobalamin 5 5 4
adenosylcobinamide-GDP salvage from cobinamide I 5 5 3
adenosylcobinamide-GDP biosynthesis from cobyrinate a,c-diamide 6 6 3
adenosylcobinamide-GDP salvage from cobinamide II 6 5 3
cobalamin salvage (eukaryotic) 8 4 4
cytidylyl molybdenum cofactor sulfurylation 2 1 1
superpathway of adenosylcobalamin salvage from cobinamide I 8 8 3
superpathway of adenosylcobalamin salvage from cobinamide II 9 8 3
bis(guanylyl molybdopterin) cofactor sulfurylation 3 1 1
thiazole component of thiamine diphosphate biosynthesis II 7 6 2
superpathway of L-alanine biosynthesis 4 3 1
tRNA-uridine 2-thiolation (mammalian mitochondria) 4 1 1
tRNA-uridine 2-thiolation (yeast mitochondria) 4 1 1
tRNA-uridine 2-thiolation (thermophilic bacteria) 5 3 1
[2Fe-2S] iron-sulfur cluster biosynthesis 10 2 2
superpathway of thiamine diphosphate biosynthesis II 11 10 2
thiazole component of thiamine diphosphate biosynthesis I 6 4 1
molybdopterin biosynthesis 6 3 1
tRNA-uridine 2-thiolation (cytoplasmic) 8 1 1
superpathway of thiamine diphosphate biosynthesis I 10 8 1
adenosylcobalamin biosynthesis II (aerobic) 33 27 3
tRNA-uridine 2-thiolation and selenation (bacteria) 11 1 1
adenosylcobalamin biosynthesis I (anaerobic) 36 25 3