Experiment set2IT036 for Rhodanobacter denitrificans FW104-10B01
R2A with Sodium arsenate dibasic heptahydrate 15.625 mM
Group: stressMedia: R2A + Sodium arsenate dibasic heptahydrate (15.625 mM)
Culturing: rhodanobacter_10B01_ML12, 96 deep-well microplate; 0.8 mL volume, Aerobic, at 30 (C), shaken=700 rpm
By: Hans on 2/27/21
Media components: 0.5 g/L Bacto Peptone, 0.5 g/L casamino acids, 0.5 g/L Yeast Extract, 0.5 g/L D-Glucose, 0.5 g/L Starch, 0.3 g/L Potassium phosphate dibasic, 0.05 g/L Magnesium Sulfate Heptahydrate, 0.3 g/L Sodium pyruvate
Specific Phenotypes
For 9 genes in this experiment
For stress Sodium arsenate dibasic heptahydrate in Rhodanobacter denitrificans FW104-10B01
For stress Sodium arsenate dibasic heptahydrate across organisms
SEED Subsystems
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Glycolysis / Gluconeogenesis
- Pentose phosphate pathway
- Fructose and mannose metabolism
- Puromycin biosynthesis
- Lipopolysaccharide biosynthesis
- Carbon fixation in photosynthetic organisms
- Biosynthesis of phenylpropanoids
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| tRNA processing | 10 | 10 | 2 |
| sucrose biosynthesis I (from photosynthesis) | 9 | 7 | 1 |
| glycolysis II (from fructose 6-phosphate) | 11 | 11 | 1 |
| gluconeogenesis III | 12 | 10 | 1 |
| formaldehyde assimilation III (dihydroxyacetone cycle) | 12 | 10 | 1 |
| glycolysis I (from glucose 6-phosphate) | 13 | 12 | 1 |
| gluconeogenesis I | 13 | 11 | 1 |
| Calvin-Benson-Bassham cycle | 13 | 9 | 1 |
| superpathway of glycolysis and the Entner-Doudoroff pathway | 17 | 16 | 1 |
| oxygenic photosynthesis | 17 | 10 | 1 |
| superpathway of hexitol degradation (bacteria) | 18 | 14 | 1 |
| superpathway of anaerobic sucrose degradation | 19 | 16 | 1 |
| hexitol fermentation to lactate, formate, ethanol and acetate | 19 | 14 | 1 |
| superpathway of N-acetylneuraminate degradation | 22 | 16 | 1 |
| ethene biosynthesis V (engineered) | 25 | 17 | 1 |
| superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass | 26 | 23 | 1 |
| photosynthetic 3-hydroxybutanoate biosynthesis (engineered) | 26 | 17 | 1 |
| 1-butanol autotrophic biosynthesis (engineered) | 27 | 18 | 1 |