Experiment set3IT071 for Desulfovibrio vulgaris Miyazaki F
MoYLS4 with Cephalothin sodium salt 0.625 mg/ml
Group: stressMedia: MoYLS4 + Cephalothin sodium salt (0.625 mg/ml), pH=7.2
Culturing: Miya_ML3_a, 24 deep-well microplate, Anaerobic, at 30 (C), shaken=0 rpm
By: Jen on 11/31/2014
Media components: 1 g/L Yeast Extract, 30 mM Sodium sulfate, 60 mM Sodium D,L-Lactate, 20 mM Ammonium chloride, 30 mM Tris hydrochloride, 0.12 mM EDTA, 1 mM Sodium sulfide nonahydrate, 8 mM Magnesium chloride hexahydrate, 0.6 mM Calcium chloride, 2 mM Potassium phosphate dibasic, 60 uM Iron (II) chloride tetrahydrate, 15 uM Manganese (II) chloride tetrahydrate, 7.8 uM Cobalt chloride hexahydrate, 9 uM Zinc chloride, 1.26 uM Sodium molybdate, 1.92 uM Boric Acid, 2.28 uM Nickel (II) sulfate hexahydrate, 0.06 uM copper (II) chloride dihydrate, 0.21 uM Sodium selenite pentahydrate, 0.144 uM Sodium tungstate dihydrate, Thauer's vitamin mix (0.01 mg/L Pyridoxine HCl, 0.005 mg/L 4-Aminobenzoic acid, 0.005 mg/L Lipoic acid, 0.005 mg/L Nicotinic Acid, 0.005 mg/L Riboflavin, 0.005 mg/L Thiamine HCl, 0.005 mg/L calcium pantothenate, 0.002 mg/L biotin, 0.002 mg/L Folic Acid, 0.0001 mg/L Cyanocobalamin, 0.2 mg/L Choline chloride)
Specific Phenotypes
For 5 genes in this experiment
For stress Cephalothin sodium salt in Desulfovibrio vulgaris Miyazaki F
For stress Cephalothin sodium salt across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Anaerobic respiratory reductases | 1 |
| Capsular Polysaccharide (CPS) of Campylobacter | 1 |
| Hydrogenases | 1 |
| Soluble cytochromes and functionally related electron carriers | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Glutamate metabolism
- Nitrogen metabolism
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| L-glutamate biosynthesis I | 2 | 2 | 2 |
| L-glutamine degradation II | 1 | 1 | 1 |
| L-glutamine degradation I | 1 | 1 | 1 |
| L-glutamate biosynthesis IV | 1 | 1 | 1 |
| ammonia assimilation cycle III | 3 | 3 | 2 |
| ammonia assimilation cycle I | 2 | 2 | 1 |
| L-glutamate and L-glutamine biosynthesis | 7 | 4 | 3 |
| superpathway of ammonia assimilation (plants) | 3 | 2 | 1 |
| L-asparagine biosynthesis III (tRNA-dependent) | 4 | 4 | 1 |
| glutaminyl-tRNAgln biosynthesis via transamidation | 4 | 3 | 1 |
| L-citrulline biosynthesis | 8 | 5 | 1 |
| superpathway of L-citrulline metabolism | 12 | 7 | 1 |