Experiment set3IT006 for Herbaspirillum seropedicae SmR1
D-Xylose carbon source
Group: carbon sourceMedia: NFbHP_noCarbon + D-Xylose (5 g/L), pH=6.5
Culturing: HerbieS_ML4, flask, Aerobic, at 30 (C), shaken=120 rpm
Growth: about 5.6 generations
By: Thalita Tuleski on 19-May-16
Specific Phenotypes
For 7 genes in this experiment
For carbon source D-Xylose in Herbaspirillum seropedicae SmR1
For carbon source D-Xylose across organisms
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 |
|---|---|---|---|
| L-lyxonate degradation | 3 | 2 | 2 |
| D-arabinose degradation III | 6 | 4 | 3 |
| pyruvate fermentation to acetate VIII | 2 | 1 | 1 |
| D-xylose degradation V | 5 | 4 | 2 |
| D-xylose degradation III | 5 | 3 | 2 |
| D-glucarate degradation II | 3 | 3 | 1 |
| D-galactarate degradation II | 3 | 3 | 1 |
| L-arabinose degradation III | 6 | 5 | 2 |
| D-arabinose degradation IV | 6 | 4 | 2 |
| L-carnitine degradation II | 3 | 1 | 1 |
| superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) | 8 | 6 | 2 |
| 1,2-dichloroethane degradation | 4 | 2 | 1 |
| trans-4-hydroxy-L-proline degradation II | 4 | 1 | 1 |
| D-glucuronate degradation II | 5 | 4 | 1 |
| cytosolic NADPH production (yeast) | 5 | 4 | 1 |
| D-galacturonate degradation I | 5 | 3 | 1 |
| mitochondrial NADPH production (yeast) | 5 | 3 | 1 |
| D-galacturonate degradation II | 5 | 3 | 1 |
| D-xylose degradation VI | 5 | 3 | 1 |
| L-fucose degradation III | 8 | 8 | 1 |
| superpathway of pentose and pentitol degradation | 42 | 19 | 5 |
| superpathway of hexuronide and hexuronate degradation | 10 | 4 | 1 |
| superpathway of microbial D-galacturonate and D-glucuronate degradation | 31 | 16 | 2 |