Experiment set4IT005 for Desulfovibrio vulgaris Miyazaki F
4 days starvation 37C
Group: starvationMedia: MoYLS4, pH=7.2
Culturing: Miya_ML3_a, 15 mL falcon, Anaerobic, at 37 (C), shaken=0 rpm
By: Jen on 1/9/2015
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 20 genes in this experiment
SEED Subsystems
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 |
|---|---|---|---|
| hydrogen oxidation I (aerobic) | 1 | 1 | 1 |
| NADH to cytochrome bd oxidase electron transfer I | 2 | 1 | 1 |
| NADH to cytochrome bo oxidase electron transfer I | 2 | 1 | 1 |
| aerobic respiration III (alternative oxidase pathway) | 3 | 2 | 1 |
| aerobic respiration I (cytochrome c) | 4 | 3 | 1 |
| NAD(P)/NADPH interconversion | 6 | 2 | 1 |
| Fe(II) oxidation | 6 | 2 | 1 |
| lactate fermentation to acetate, CO2 and hydrogen (Desulfovibrionales) | 8 | 7 | 1 |