Experiment set5IT075 for Rhodanobacter denitrificans FW104-10B01

Compare to:

L-Glutamic acid monopotassium salt monohydrate 20 mM

Group: carbon source
Media: Hans_Basal_Media_plus_0.2x_20AA_mix + L-Glutamic acid monopotassium salt monohydrate (20 mM)
Culturing: rhodanobacter_10B01_ML12, 96 deep-well microplate; 0.8 mL volume, Aerobic, at 30 (C), shaken=700 rpm
By: Hans Carlson and Trenton Owens on 24-Aug-21
Media components: 0.03 M PIPES sesquisodium salt, 0.1 g/L Potassium Chloride, 0.01 g/L Sodium Chloride, 0.01 g/L Calcium chloride dihydrate, 0.1 g/L Magnesium chloride hexahydrate, 0.1 g/L Sodium sulfate, 0.25 g/L Ammonium chloride, 0.1 g/L Disodium phosphate, 20AA_mix (0.1 mM L-Arginine, 0.1 mM L-Histidine, 0.1 mM L-Lysine, 0.1 mM L-Aspartic Acid, 0.1 mM L-Glutamic acid monopotassium salt monohydrate, 0.1 mM L-Serine, 0.1 mM L-Threonine, 0.1 mM L-Asparagine, 0.1 mM L-Glutamine, 0.1 mM L-Cysteine hydrochloride monohydrate, 0.1 mM Glycine, 0.1 mM L-Proline, 0.1 mM L-Alanine, 0.1 mM L-Valine, 0.1 mM L-Isoleucine, 0.1 mM L-Leucine, 0.1 mM L-Methionine, 0.1 mM L-Phenylalanine, 0.1 mM L-tyrosine disodium salt, 0.1 mM L-Tryptophan), DL vitamins (0.0002 mg/L biotin, 0.0002 mg/L Folic Acid, 0.001 mg/L Pyridoxine HCl, 0.0005 mg/L Riboflavin, 0.0005 mg/L Thiamine HCl, 0.0005 mg/L Nicotinic Acid, 0.0005 mg/L calcium pantothenate, 1e-05 mg/L Cyanocobalamin, 0.0005 mg/L 4-Aminobenzoic acid, 0.0005 mg/L Lipoic acid), Sulfur-free DL minerals (0.0003 g/L Magnesium chloride hexahydrate, 0.00015 g/L Nitrilotriacetic acid disodium salt, 0.0001 g/L Sodium Chloride, 5e-05 g/L Manganese (II) chloride tetrahydrate, 1e-05 g/L Cobalt chloride hexahydrate, 1.3e-05 g/L Zinc chloride, 1e-05 g/L Calcium chloride dihydrate, 1e-05 g/L Iron (II) chloride tetrahydrate, 2.5e-06 g/L Nickel (II) chloride hexahydrate, 2e-06 g/L Aluminum chloride hydrate, 1e-06 g/L copper (II) chloride dihydrate, 1e-06 g/L Boric Acid, 1e-06 g/L Sodium Molybdate Dihydrate, 3e-05 g/L Sodium selenite pentahydrate, 2.5e-05 g/L Sodium tungstate dihydrate)
Growth plate: 2 E7

Specific Phenotypes

For 2 genes in this experiment

For carbon source L-Glutamic acid monopotassium salt monohydrate in Rhodanobacter denitrificans FW104-10B01

For carbon source L-Glutamic acid monopotassium salt monohydrate across organisms

SEED Subsystems

Subsystem #Specific
De Novo Purine Biosynthesis 1
Methionine 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
acetate and ATP formation from acetyl-CoA I 2 2 1
tetrahydrofolate salvage from 5,10-methenyltetrahydrofolate 2 2 1
glycine degradation (reductive Stickland reaction) 2 1 1
superpathway of 5-aminoimidazole ribonucleotide biosynthesis 6 6 2
superpathway of acetate utilization and formation 3 3 1
pyruvate fermentation to acetate II 3 3 1
pyruvate fermentation to acetate VII 3 2 1
pyruvate fermentation to acetate IV 3 2 1
pyruvate fermentation to acetate I 3 2 1
L-methionine salvage from L-homocysteine 3 1 1
pyruvate fermentation to acetate and (S)-lactate I 4 3 1
L-methionine biosynthesis III 4 3 1
pyruvate fermentation to acetate and lactate II 4 2 1
5-aminoimidazole ribonucleotide biosynthesis II 5 5 1
5-aminoimidazole ribonucleotide biosynthesis I 5 5 1
ethanolamine utilization 5 3 1
acetylene degradation (anaerobic) 5 3 1
L-methionine biosynthesis I 5 3 1
methanogenesis from acetate 6 2 1
acetyl-CoA fermentation to butanoate 7 5 1
superpathway of L-homoserine and L-methionine biosynthesis 8 6 1
lactate fermentation to acetate, CO2 and hydrogen (Desulfovibrionales) 8 2 1
folate transformations III (E. coli) 9 9 1
superpathway of L-methionine biosynthesis (transsulfuration) 9 7 1
superpathway of S-adenosyl-L-methionine biosynthesis 9 7 1
reductive glycine pathway of autotrophic CO2 fixation 9 5 1
superpathway of fermentation (Chlamydomonas reinhardtii) 9 5 1
superpathway of Clostridium acetobutylicum acidogenic fermentation 9 5 1
superpathway of L-alanine fermentation (Stickland reaction) 9 4 1
L-lysine fermentation to acetate and butanoate 10 3 1
folate transformations II (plants) 11 10 1
gallate degradation III (anaerobic) 11 3 1
superpathway of L-methionine biosynthesis (by sulfhydrylation) 12 11 1
superpathway of tetrahydrofolate biosynthesis and salvage 12 10 1
folate transformations I 13 8 1
(S)-lactate fermentation to propanoate, acetate and hydrogen 13 5 1
Bifidobacterium shunt 15 14 1
purine nucleobases degradation I (anaerobic) 15 3 1
mixed acid fermentation 16 12 1
superpathway of L-methionine salvage and degradation 16 8 1
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation 17 6 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 16 1
hexitol fermentation to lactate, formate, ethanol and acetate 19 14 1
superpathway of purine nucleotides de novo biosynthesis I 21 21 1
superpathway of methanogenesis 21 2 1
superpathway of N-acetylneuraminate degradation 22 16 1
purine nucleobases degradation II (anaerobic) 24 9 1
aspartate superpathway 25 23 1
superpathway of purine nucleotides de novo biosynthesis II 26 24 1
superpathway of L-lysine degradation 43 7 1
superpathway of histidine, purine, and pyrimidine biosynthesis 46 44 1