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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.
Makarova KS, Grishin NV, Shabalina SA, Wolf YI, Koonin EV. Makarova KS, et al. Biol Direct. 2006 Mar 16;1:7. doi: 10.1186/1745-6150-1-7. Biol Direct. 2006. PMID: 16545108 Free PMC article.
Short repeats and IS elements in the extremely radiation-resistant bacterium Deinococcus radiodurans and comparison to other bacterial species.
Makarova KS, Wolf YI, White O, Minton K, Daly MJ. Makarova KS, et al. Res Microbiol. 1999 Nov-Dec;150(9-10):711-24. doi: 10.1016/s0923-2508(99)00121-7. Res Microbiol. 1999. PMID: 10673009
SURVEY AND SUMMARY: holliday junction resolvases and related nucleases: identification of new families, phyletic distribution and evolutionary trajectories.
Aravind L, Makarova KS, Koonin EV. Aravind L, et al. Nucleic Acids Res. 2000 Sep 15;28(18):3417-32. doi: 10.1093/nar/28.18.3417. Nucleic Acids Res. 2000. PMID: 10982859 Free PMC article.
Lineage-specific gene expansions in bacterial and archaeal genomes.
Jordan IK, Makarova KS, Spouge JL, Wolf YI, Koonin EV. Jordan IK, et al. Genome Res. 2001 Apr;11(4):555-65. doi: 10.1101/ Genome Res. 2001. PMID: 11282971 Free PMC article.
Horizontal gene transfer in prokaryotes: quantification and classification.
Koonin EV, Makarova KS, Aravind L. Koonin EV, et al. Annu Rev Microbiol. 2001;55:709-42. doi: 10.1146/annurev.micro.55.1.709. Annu Rev Microbiol. 2001. PMID: 11544372 Free PMC article. Review.
Two C or not two C: recurrent disruption of Zn-ribbons, gene duplication, lineage-specific gene loss, and horizontal gene transfer in evolution of bacterial ribosomal proteins.
Makarova KS, Ponomarev VA, Koonin EV. Makarova KS, et al. Genome Biol. 2001;2(9):RESEARCH 0033. doi: 10.1186/gb-2001-2-9-research0033. Epub 2001 Aug 30. Genome Biol. 2001. PMID: 11574053 Free PMC article.
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