Alphaproteobacteria: Agrobacterium fabrum C58
NCBI taxonomy id: 176299
Fitness Experiments
| Group | Conditions | Experiments |
|---|---|---|
| agar plate interaction | 1 | 8 |
| agar plate interaction control | 1 | 3 |
| benthi_leaf_lb | 1 | 5 |
| benthi_leaf_lb with c58c1od0.075 | 1 | 5 |
| benthi_leaf_lb with c58c1od2.0 | 1 | 5 |
| carbon source | 110 | 222 |
| in planta | 35 | 224 |
| lb | 2 | 14 |
| lb control | 1 | 6 |
| lb_arabidopsis_leaf | 1 | 5 |
| lb_arabidopsis_root | 1 | 2 |
| lb_benthi_root | 1 | 2 |
| lb_cucumber_cotlyden | 1 | 4 |
| lb_lettuce_leaf | 1 | 4 |
| lb_maize | 1 | 4 |
| lb_ntabacum_leaf | 1 | 4 |
| lb_sorghum b5 999 | 1 | 2 |
| lb_sorghum btx 430 | 1 | 2 |
| lb_sorghum btx 642 | 1 | 2 |
| lb_sorghum f72 f505 | 1 | 3 |
| lb_sorghum nk 300 | 1 | 3 |
| lb_sorghum rtx 430 | 1 | 3 |
| lb_sorghum ss 20 | 1 | 3 |
| lb_sorghum x50 665 | 1 | 3 |
| lb_sorghum x54 243 | 1 | 2 |
| lb_sorghum_leaf | 1 | 5 |
| lb_sorghum_root | 1 | 2 |
| lb_tobacco_leaf | 1 | 3 |
| lb_tomato_leaf | 1 | 4 |
| lb_tomato_root | 1 | 3 |
| lb_wheat | 1 | 4 |
| nitrogen source | 45 | 88 |
| no phage | 1 | 9 |
| nophagecontrol | 1 | 5 |
| pH | 1 | 2 |
| phage | 3 | 59 |
| r2a control | 1 | 3 |
| r2a_control | 1 | 18 |
| stress | 98 | 201 |
| supernatant | 1 | 3 |
| supernatant control:fungal media | 1 | 4 |
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
1065 genes with specific phenotypes, and 216 with conserved-specific phenotypes.
| Group | # Conditions | # Genes |
|---|---|---|
| agar plate interaction | 1 | 13 |
| agar plate interaction control | 1 | 3 |
| benthi_leaf_lb | 1 | 2 |
| benthi_leaf_lb with c58c1od0.075 | 1 | 2 |
| benthi_leaf_lb with c58c1od2.0 | 1 | 1 |
| carbon source | 97 | 510 |
| in planta | 31 | 199 |
| lb | 2 | 5 |
| lb control | 1 | 3 |
| lb_arabidopsis_leaf | 1 | 5 |
| lb_arabidopsis_root | 1 | 1 |
| lb_cucumber_cotlyden | 1 | 3 |
| lb_maize | 1 | 3 |
| lb_ntabacum_leaf | 1 | 3 |
| lb_sorghum b5 999 | 1 | 1 |
| lb_sorghum btx 430 | 1 | 1 |
| lb_sorghum btx 642 | 1 | 2 |
| lb_sorghum f72 f505 | 1 | 3 |
| lb_sorghum nk 300 | 1 | 2 |
| lb_sorghum ss 20 | 1 | 2 |
| lb_sorghum x50 665 | 1 | 2 |
| lb_sorghum_leaf | 1 | 4 |
| lb_tobacco_leaf | 1 | 1 |
| lb_wheat | 1 | 5 |
| nitrogen source | 45 | 181 |
| no phage | 1 | 31 |
| nophagecontrol | 1 | 10 |
| pH | 1 | 6 |
| phage | 2 | 95 |
| r2a_control | 1 | 3 |
| stress | 64 | 465 |
Scaffolds
Downloads
- Fitness values (tab-delimited)
- t scores (tab-delimited)
- Top cofitness for each gene (tab-delimited)
- includes 432 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 4429 of 5423 genes.