TADB: a web-based resource for Type 2 toxin-antitoxin loci in bacteria and archaea

Nucleic Acids Res. 2011 Jan;39(Database issue):D606-11. doi: 10.1093/nar/gkq908. Epub 2010 Oct 6.

Abstract

TADB (http://bioinfo-mml.sjtu.edu.cn/TADB/) is an integrated database that provides comprehensive information about Type 2 toxin-antitoxin (TA) loci, genetic features that are richly distributed throughout bacterial and archaeal genomes. Two-gene and much less frequently three-gene Type 2 TA loci code for cognate partners that have been hypothesized or demonstrated to play key roles in stress response, bacterial physiology and stabilization of horizontally acquired genetic elements. TADB offers a unique compilation of both predicted and experimentally supported Type 2 TA loci-relevant data and currently contains 10,753 Type 2 TA gene pairs identified within 1240 prokaryotic genomes, and details of over 240 directly relevant scientific publications. A broad range of similarity search, sequence alignment, genome context browser and phylogenetic tools are readily accessible via TADB. We propose that TADB will facilitate efficient, multi-disciplinary and innovative exploration of the bacteria and archaea Type 2 TA space, better defining presently recognized TA-related phenomena and potentially even leading to yet-to-be envisaged frontiers. The TADB database, envisaged as a one-stop shop for Type 2 TA-related research, will be maintained, updated and improved regularly to ensure its ongoing maximum utility to the research community.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Archaea / genetics
  • Archaeal Proteins / genetics*
  • Bacteria / genetics
  • Bacterial Proteins / genetics*
  • Bacterial Toxins / genetics*
  • Databases, Genetic*
  • Genetic Loci
  • Genome, Archaeal
  • Genome, Bacterial
  • Internet
  • Toxins, Biological / genetics

Substances

  • Archaeal Proteins
  • Bacterial Proteins
  • Bacterial Toxins
  • Toxins, Biological