What is MiST?
The Microbial Signal Transduction database contains the signal transduction proteins for 1,156 complete and 338 draft bacterial and archaeal genomes. These are identified using various domain profiles that directly or indirectly implicate a particular protein in participating in signal transduction.
Latest news
24 August 2010, 03:42 PM
- August update complete - 99 additional genomes added.
22 July 2010, 12:29 PM
- Long awaited MiST2 update completed. This update not only includes recently released genomes but also an updated list of signaling domain models and Pfam 24 models.
- There is currently a bug in the PHP server code that incorrectly renders the labels for the signal transduction profile graph. This will be fixed when the administrators update to the next stable PHP release.
- If you experience issues accessing the database, please contact us and let us know.
Citing MiST
If you use information from the MiST database in your research, please cite:
- The MiST2 database: a comprehensive genomics resource on microbial signal transduction.
Luke E. Ulrich and Igor B. Zhulin
Nucleic Acids Research, 2009, doi:10.1093/nar/gkp940.
Definitions of microbial signal transduction implemented in MiST are described in:
- One-component systems dominate signal transduction in prokaryotes.
Luke E. Ulrich, Eugene V. Koonin, and Igor B. Zhulin
Trends in Microbiology, 2005, 13:52-56.
Genomic distribution of signal transduction proteins
| Genomes | One-component | Two-component | Chemotaxis * | ECF | ||
|---|---|---|---|---|---|---|
| Archaea | Complete | 86 | 6,190 | 1,341 | 581 | 0 |
| Archaea | Draft | 4 | 185 | 2 | 23 | 0 |
| Bacteria | Complete | 1,070 | 178,036 | 64,890 | 16,134 | 6,785 |
| Bacteria | Draft | 334 | 55,289 | 17,589 | 3,089 | 1,761 |
| Total | 1,494 | 239,700 | 83,822 | 19,827 | 8,546 |
Champion genomes:
- 1,345 signal transduction proteins: Ktedonobacter racemifer DSM 44963
- 922 one-component proteins: Amycolatopsis mediterranei U32
- 365 two-component proteins: Ktedonobacter racemifer DSM 44963
- 128 chemotaxis proteins: Azospirillum sp. B510
- 103 ECF proteins: Catenulispora acidiphila DSM 44928
- Largest genome (13.7 Mbp): Ktedonobacter racemifer DSM 44963
- Most genes (12,718 genes): Ktedonobacter racemifer DSM 44963
* Note: Chemotaxis is a specialized form of two-component systems (details)
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Top 10 Google-ranked bacteria
| Escherichia coli | 1,730,000 |
| Staphylococcus aureus | 711,000 |
| Escherichia sp. | 626,000 |
| Pseudomonas aeruginosa | 444,000 |
| Bacillus subtilis | 327,000 |
| Helicobacter pylori | 298,000 |
| Mycobacterium tuberculosis | 288,000 |
| Streptococcus pneumoniae | 206,000 |
| Haemophilus influenzae | 140,000 |
| Klebsiella pneumoniae | 128,000 |
Bioinformatic tools
| Pfam 24 | 6,070,450 | domains |
| Agfam 1 | 250,291 | signaling domains |
| DAS 5 | 5,271,212 | transmembrane regions |
| Coils 2.01 | 576,995 | coiled-coils |
| Seg | 5,439,450 | low-complexity regions |
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