Experiment set9S180 for Methanococcus maripaludis JJ
Formate 100 mM hypophosphite
Group: stressMedia: McCas_formate_complete + Sodium hypophosphite (100 mM), pH=7
Culturing: Methanococcus_JJ_ML1, 5 mL Balch Tube, Anaerobic, at 37 (C), shaken=180 rpm
By: Leslie Day on 24-Jul
Media components: 2.5 g/L Sodium bicarbonate, 10.5 g/L Sodium Chloride, 1 g/L Ammonium chloride, 0.14 g/L Potassium phosphate dibasic, 0.0095 g/L Iron (II) chloride tetrahydrate, 0.001 g/L resazurin sodium salt, 0.84 g/L Sodium acetate, 13.6 g/L Sodium Formate, 2 g/L casamino acids, 0.5 g/L Dithiothreitol, 0.001 g/L Sodium sulfide nonahydrate, MOPS_2M_pH7 (0.002 M 3-(N-morpholino)propanesulfonic acid, 0.0005 M Sodium Hydroxide), Mc_general_salts_SO4free (0.335 g/L Potassium Chloride, 5.6 g/L Magnesium chloride hexahydrate, 0.105 g/L Calcium chloride), Mc_trace_minerals_SO4free (0.021 g/L Trisodium citrate dihydrate, 0.005 g/L Manganese (II) chloride tetrahydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc chloride, 0.0001 g/L copper (II) chloride dihydrate, 0.0001 g/L Aluminum chloride hydrate, 0.0001 g/L Boric Acid, 0.001 g/L Sodium Molybdate Dihydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.002 g/L Sodium selenate, 0.0001 g/L vanadium chloride, 3.3e-05 g/L Sodium tungstate dihydrate), Mc_vitamins (2e-05 g/L biotin, 2e-05 g/L Folic Acid, 0.0001 g/L Pyridoxine HCl, 5e-05 g/L Thiamine HCl, 5e-05 g/L Riboflavin, 5e-05 g/L Nicotinic Acid, 5e-05 g/L calcium pantothenate, 1e-06 g/L Cyanocobalamin, 5e-05 g/L 4-Aminobenzoic acid, 5e-05 g/L Lipoic acid)
Specific Phenotypes
For 9 genes in this experiment
For stress Sodium hypophosphite in Methanococcus maripaludis JJ
For stress Sodium hypophosphite across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Coenzyme F420 hydrogenase | 3 |
| Hydrogenases | 2 |
| Chorismate Synthesis | 1 |
| Coenzyme F420 synthesis | 1 |
| Phenylalanine and Tyrosine Branches from Chorismate | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Phenylalanine, tyrosine and tryptophan biosynthesis
- Folate biosynthesis
- Biosynthesis of phenylpropanoids
- Biosynthesis of alkaloids derived from shikimate pathway
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-phenylalanine biosynthesis III (cytosolic, plants) | 2 | 2 | 1 |
| L-phenylalanine biosynthesis I | 3 | 3 | 1 |
| coenzyme B/coenzyme M regeneration I (methanophenazine-dependent) | 4 | 2 | 1 |
| factor 420 biosynthesis I (archaea) | 5 | 5 | 1 |
| 3PG-factor 420 biosynthesis | 5 | 4 | 1 |
| factor 420 biosynthesis II (mycobacteria) | 6 | 4 | 1 |
| superpathway of L-phenylalanine biosynthesis | 10 | 9 | 1 |
| superpathway of aromatic amino acid biosynthesis | 18 | 17 | 1 |
| superpathway of chorismate metabolism | 59 | 25 | 1 |