Experiment set11IT008 for Desulfovibrio vulgaris Hildenborough JW710
MoLS4 with L-Tyrosine as nutrient 10mM
Group: nutrientMedia: MoLS4 + L-tyrosine (10 mM), pH=7.2
Culturing: DvH_JW710, 24 deep-well microplate, Anaerobic, at 30 (C), shaken=0 rpm
By: Valentine on 5/5/2017
Media components: 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, Desulfovibrio trace elements (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 3 genes in this experiment
For nutrient L-tyrosine in Desulfovibrio vulgaris Hildenborough JW710
For nutrient L-tyrosine across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Folate Biosynthesis | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Purine metabolism
- Pyrimidine metabolism
- Lysine biosynthesis
- Lysine degradation
- Nicotinate and nicotinamide metabolism
- Biosynthesis of alkaloids derived from histidine and purine
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| NAD salvage pathway III (to nicotinamide riboside) | 3 | 2 | 1 |
| UTP and CTP dephosphorylation I | 7 | 5 | 2 |
| purine nucleotides degradation II (aerobic) | 11 | 9 | 3 |
| inosine 5'-phosphate degradation | 4 | 4 | 1 |
| spermidine biosynthesis II | 4 | 3 | 1 |
| guanosine nucleotides degradation III | 4 | 3 | 1 |
| adenosine nucleotides degradation I | 8 | 5 | 2 |
| purine nucleotides degradation I (plants) | 12 | 6 | 3 |
| guanosine nucleotides degradation I | 4 | 2 | 1 |
| guanosine nucleotides degradation II | 4 | 2 | 1 |
| adenosine nucleotides degradation II | 5 | 4 | 1 |
| superpathway of purines degradation in plants | 18 | 6 | 3 |
| superpathway of guanosine nucleotides degradation (plants) | 6 | 2 | 1 |
| ureide biosynthesis | 7 | 4 | 1 |
| superpathway of polyamine biosynthesis III | 8 | 3 | 1 |
| L-lysine biosynthesis IV | 9 | 3 | 1 |
| tunicamycin biosynthesis | 9 | 1 | 1 |
| NAD salvage (plants) | 11 | 4 | 1 |