Gammaproteobacteria: Pseudomonas simiae WCS417
NCBI taxonomy id: 321846
Fitness Experiments
| Group | Conditions | Experiments |
|---|---|---|
| agar plate interaction | 2 | 13 |
| agar plate interaction control | 2 | 8 |
| carbon source | 52 | 118 |
| ecofab | 1 | 2 |
| exudates | 2 | 4 |
| in planta | 8 | 26 |
| lb | 1 | 1 |
| liquid stress | 3 | 42 |
| motility | 1 | 8 |
| motility_chemotaxis | 9 | 77 |
| nitrogen source | 11 | 11 |
| no phage control | 1 | 1 |
| no stress control | 1 | 4 |
| no stress control on plate | 1 | 2 |
| nophagecontrol | 2 | 3 |
| phage | 5 | 22 |
| phage moi 100 | 1 | 1 |
| r2a control | 1 | 1 |
| r2a control with 0.2% methanol | 1 | 1 |
| r2a control with 0.2x vogels | 1 | 2 |
| rhizosphere | 1 | 3 |
| root | 1 | 1 |
| seeds | 1 | 4 |
| soil | 1 | 7 |
| solid stress | 3 | 52 |
| stress | 34 | 77 |
| supernatant | 16 | 44 |
| supernatant control | 2 | 8 |
| supernatant control:fungal media | 1 | 6 |
| temperature | 2 | 3 |
Tools
- Build heatmap
- Experiment correlations
- KEGG maps
- KEGG overview map
- SEED subsystems
- MetaCyc pathways
- Curated BLAST for this genome
- GapMind for amino acid biosynthesis or carbon catabolism
- ENIGMA genome browser
Specific Phenotypes
768 genes with specific phenotypes, and 311 with conserved-specific phenotypes.
| Group | # Conditions | # Genes |
|---|---|---|
| agar plate interaction | 1 | 22 |
| agar plate interaction control | 1 | 11 |
| carbon source | 48 | 289 |
| ecofab | 1 | 5 |
| exudates | 1 | 2 |
| in planta | 8 | 91 |
| liquid stress | 3 | 34 |
| motility | 1 | 11 |
| motility_chemotaxis | 6 | 76 |
| nitrogen source | 11 | 77 |
| no phage control | 1 | 4 |
| no stress control on plate | 1 | 2 |
| nophagecontrol | 1 | 1 |
| phage | 5 | 26 |
| phage moi 100 | 1 | 3 |
| r2a control with 0.2x vogels | 1 | 1 |
| rhizosphere | 1 | 25 |
| root | 1 | 35 |
| seeds | 1 | 3 |
| soil | 1 | 26 |
| solid stress | 3 | 54 |
| stress | 28 | 209 |
| supernatant | 7 | 120 |
| supernatant control | 2 | 4 |
| supernatant control:fungal media | 1 | 2 |
| temperature | 1 | 1 |
Updated Annotations
Updated annotations for 118 genesScaffolds
Downloads
- Fitness values (tab-delimited)
- t scores (tab-delimited)
- Top cofitness for each gene (tab-delimited)
- includes 382 genes with conserved cofitness
- Specific phenotypes (tab-delimited)
- Experiment meta-data (tab-delimited)
- Reannotations (tab-delimited; includes protein sequences)
- Genome sequence (fasta)
- Protein sequences (fasta)
- List of genes (tab-delimited)
Fitness data for 4419 of 5580 genes.