Genome Biology

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New connections in the prokaryotic toxin-antitoxin network: relationship with the eukaryotic nonsense-mediated RNA decay system

Vivek Anantharaman and L Aravind*

Genome Biology 2003, 4:R81 doi:10.1186/gb-2003-4-12-r81

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Origin of the cell nucleus, mitosis and sex: roles of intracellular coevolution

Thomas Cavalier-Smith Biology Direct 2010, 5:7 (4 February 2010)

This article is part of a collection on Evolutionary Biology 150...

Research   Open Access

Comprehensive comparative-genomic analysis of Type 2 toxin-antitoxin systems and related mobile stress response systems in prokaryotes

Kira S Makarova, Yuri I Wolf, Eugene V Koonin Biology Direct 2009, 4:19 (3 June 2009)

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Automated discovery and phylogenetic analysis of new toxin-antitoxin systems

Julien Guglielmini, Cédric Szpirer, Michel C Milinkovitch BMC Microbiology 2008, 8:104 (25 June 2008)

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RASTA-Bacteria: a web-based tool for identifying toxin-antitoxin loci in prokaryotes

Emeric W Sevin, Frédérique Barloy-Hubler Genome Biology 2007, 8:R155 (1 August 2007)

RASTA-Bacteria is an automated method that allows quick and reliable identification of toxin/antitoxin loci in sequenced prokaryotic genomes, whether they are annotated Open Reading Frames or not.

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TasA-tasB, a new putative toxin-antitoxin (TA) system from Bacillus thuringiensis pGI1 plasmid is a widely distributed composite mazE-doc TA system

Sarah Fico, Jacques Mahillon BMC Genomics 2006, 7:259 (13 October 2006)

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The origin of introns and their role in eukaryogenesis: a compromise solution to the introns-early versus introns-late debate?

Eugene V Koonin Biology Direct 2006, 1:22 (14 August 2006)

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The prokaryotic antecedents of the ubiquitin-signaling system and the early evolution of ubiquitin-like β-grasp domains

Lakshminarayan M Iyer, A Maxwell Burroughs, L Aravind Genome Biology 2006, 7:R60 (19 July 2006)

A systematic analysis of prokaryotic ubiquitin-related beta-grasp fold proteins provides new insights into the Ubiquitin family functional history.

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A putative RNA-interference-based immune system in prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with eukaryotic RNAi, and hypothetical mechanisms of action

Kira S Makarova, Nick V Grishin, Svetlana A Shabalina, Yuri I Wolf, Eugene V Koonin Biology Direct 2006, 1:7 (16 March 2006)

Computational analysis shows that CRISPR repeats and associated Cas proteins in prokaryotes might act in conjunction as a RNA-silencing mechanism against plasmids and viruses, similar to the eukaryotic RNA-interference system.

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Comparative analysis of programmed cell death pathways in filamentous fungi

Natalie D Fedorova, Jonathan H Badger, Geoff D Robson, Jennifer R Wortman, William C Nierman BMC Genomics 2005, 6:177 (8 December 2005)

Phylogenetic analysis of the Aspergillus spp. genomes reveals more than 100 putative genes associated with heterokaryon incompatibility, a type of programmed cell death, including species-specific families and genes conserved across fungi and metazoa.