Experiment set1S414 for Parabacteroides merdae CL09T00C40
MRS 1 x carbon source
Group: carbon source complex mediaMedia: Varel_Bryant_medium + 1x MRS
Culturing: Pmerdae_CL09T00C40_ML3, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 37 (C), shaken=0 rpm
By: Surya on 1/10/25
Media components: 15 uM Hemin, 134 uM L-Methionine, 15 uM Iron (II) sulfate heptahydrate, 8.25 mM L-Cysteine, 23.8 mM Sodium bicarbonate, Mineral 3B solution (6.6 mM Potassium phosphate monobasic, 15.4 mM Sodium Chloride, 98 uM Magnesium chloride hexahydrate, 176.5 uM Calcium chloride dihydrate, 4.2 uM Cobalt chloride hexahydrate, 50.5 uM Manganese (II) chloride tetrahydrate, 9.3 mM Ammonium chloride, 1.75 mM Sodium sulfate)
MRS 1x includes: 56 mM D-Glucose, 10 g/L Proteose Peptone, 10 g/L Beef extract, 5 g/L Yeast Extract, 1 g/L Tween 80, 0.2 g/L Triammonium citrate, 0.5 g/L Sodium acetate, 0.2 g/L Potassium phosphate dibasic, 0.1 g/L Magnesium sulfate, 0.05 g/L Manganese (II) sulfate monohydrate, 8.25 mM L-Cysteine
Specific Phenotypes
For 5 genes in this experiment
For carbon source complex media MRS in Parabacteroides merdae CL09T00C40
For carbon source complex media MRS across organisms
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 |
|---|---|---|---|
| L-serine degradation | 3 | 3 | 3 |
| L-cysteine degradation II | 3 | 2 | 2 |
| D-serine degradation | 3 | 2 | 2 |
| L-tryptophan degradation II (via pyruvate) | 3 | 2 | 2 |
| glycine betaine degradation III | 7 | 4 | 3 |
| felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis | 5 | 2 | 2 |
| glycine betaine degradation I | 8 | 4 | 3 |
| glycine degradation | 3 | 2 | 1 |
| L-methionine biosynthesis II | 6 | 3 | 2 |
| L-mimosine degradation | 8 | 4 | 2 |
| glutathione-mediated detoxification I | 8 | 2 | 2 |
| superpathway of L-lysine, L-threonine and L-methionine biosynthesis II | 15 | 12 | 2 |
| purine nucleobases degradation II (anaerobic) | 24 | 12 | 3 |