Gammaproteobacteria: Escherichia coli BW25113
NCBI taxonomy id: 511145
Fitness Experiments
| Group | Conditions | Experiments |
|---|---|---|
| unrecorded | 4 | 31 |
| attachment_assay_attached_sample | 3 | 5 |
| attachment_assay_planktonic_sample | 2 | 4 |
| bacterial adhesion | 1 | 4 |
| balo | 2 | 4 |
| biofilm_assay_planktonic_sample | 2 | 2 |
| carbon source | 57 | 177 |
| control | 8 | 26 |
| dart | 4 | 8 |
| dilute m9 control | 1 | 4 |
| diversity test | 1 | 3 |
| drt_type_3 | 1 | 3 |
| ecofab | 1 | 2 |
| exudates | 2 | 4 |
| fishing | 1 | 2 |
| fr_1000_e3 | 1 | 1 |
| fr_1000_f3 | 1 | 1 |
| fr_100_e2 | 1 | 1 |
| fr_100_f2 | 1 | 1 |
| gfp_control | 1 | 3 |
| lb | 2 | 54 |
| lb anaerobic no stress control | 1 | 3 |
| m9 aerobic no stress control | 1 | 4 |
| m9 anaerobic no stress control | 1 | 4 |
| micoeukaryotes | 1 | 5 |
| mixed community | 14 | 26 |
| motility | 1 | 7 |
| ms2_1000_a3 | 1 | 1 |
| ms2_1000_b3 | 1 | 1 |
| msc | 2 | 24 |
| mzaabcde | 1 | 3 |
| nitrogen source | 16 | 32 |
| no phage control | 3 | 13 |
| no stress control | 4 | 20 |
| no stress control anaerobic | 1 | 6 |
| no toxin control | 1 | 4 |
| no-phage | 1 | 4 |
| nophagecontrol | 5 | 9 |
| nopredatorcontrol | 1 | 6 |
| nutrient | 3 | 9 |
| phage | 18 | 147 |
| phage; droplets | 2 | 3 |
| plasmid transformation | 1 | 12 |
| ppi | 1 | 3 |
| predation | 2 | 40 |
| pretime0_1 | 1 | 3 |
| protonated/deuterated | 2 | 12 |
| retron_ec_48_control | 1 | 3 |
| sir2-hera | 1 | 3 |
| stress | 120 | 445 |
| sulfur source | 2 | 4 |
| supernatant | 11 | 42 |
| toxin | 2 | 7 |
| vitamin | 1 | 16 |
| vitamin control | 1 | 4 |
| yeast | 1 | 3 |
Tools
- Build heatmap
- Experiment correlations
- KEGG maps
- KEGG overview map
- SEED subsystems
- MetaCyc pathways
- BLAST or Curated BLAST for this genome
- GapMind for amino acid biosynthesis or carbon catabolism
- ENIGMA genome browser
Specific Phenotypes
1072 genes with specific phenotypes, and 237 with conserved-specific phenotypes.
| Group | # Conditions | # Genes |
|---|---|---|
| 3 | 82 | |
| attachment_assay_attached_sample | 1 | 2 |
| bacterial adhesion | 1 | 3 |
| balo | 1 | 2 |
| biofilm_assay_planktonic_sample | 1 | 2 |
| carbon source | 46 | 347 |
| control | 3 | 34 |
| dart | 4 | 11 |
| diversity test | 1 | 3 |
| drt_type_3 | 1 | 12 |
| ecofab | 1 | 10 |
| fishing | 1 | 8 |
| fr_1000_e3 | 1 | 3 |
| fr_1000_f3 | 1 | 4 |
| fr_100_e2 | 1 | 3 |
| fr_100_f2 | 1 | 5 |
| gfp_control | 1 | 16 |
| lb | 1 | 20 |
| lb anaerobic no stress control | 1 | 8 |
| m9 aerobic no stress control | 1 | 5 |
| m9 anaerobic no stress control | 1 | 11 |
| micoeukaryotes | 1 | 7 |
| mixed community | 7 | 11 |
| motility | 1 | 57 |
| ms2_1000_a3 | 1 | 3 |
| ms2_1000_b3 | 1 | 5 |
| msc | 2 | 13 |
| mzaabcde | 1 | 15 |
| nitrogen source | 16 | 93 |
| no phage control | 2 | 12 |
| no stress control | 2 | 15 |
| no stress control anaerobic | 1 | 19 |
| no-phage | 1 | 2 |
| nophagecontrol | 3 | 4 |
| nopredatorcontrol | 1 | 1 |
| nutrient | 2 | 8 |
| phage | 14 | 245 |
| phage; droplets | 1 | 1 |
| plasmid transformation | 1 | 135 |
| ppi | 1 | 16 |
| predation | 2 | 18 |
| protonated/deuterated | 1 | 28 |
| retron_ec_48_control | 1 | 23 |
| sir2-hera | 1 | 21 |
| stress | 90 | 595 |
| sulfur source | 2 | 7 |
| supernatant | 2 | 26 |
| toxin | 1 | 20 |
| vitamin | 1 | 6 |
| vitamin control | 1 | 1 |
Updated Annotations
Updated annotations for 16 genesScaffolds
Downloads
- Fitness values (tab-delimited)
- t scores (tab-delimited)
- Top cofitness for each gene (tab-delimited)
- includes 456 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 3789 of 4610 genes.