Publications

Books

Logic of ChanceLogic of Chance: The Nature and Origin of Biological Evolution
-by Eugene V. Koonin
Publisher: FT Press (September 09, 2011)
ISBN: 0132542498
Sequence Evolution FunctionSequence - Evolution - Function : Computational Approaches in Comparative Genomics
-by Eugene V. Koonin, Michael Y. Galperin
Publisher: Springer; 1 edition (October 1, 2002)
ISBN: 1402072740
Frontiers in Computational Genomics pic Frontiers in Computational Genomics
-by Michael Y. Galperin (Editor), Eugene V. Koonin (Editor)
Publisher: Caister (January 2003)
ISBN: 0954246446 
Power laws scale free networks Power Laws, Scale-Free Networks and Genome Biology (Molecular Biology Intelligence Unit)
-by Eugene V. Koonin (Editor), Yuri I. Wolf (Editor), Georgy P. Karev (Editor)
Publisher: Springer; 1 edition (March 17, 2006)
ISBN: 0387258833
 

Recent research publications from the group

For all publications in PubMed click here.

Selected Publications from 2015:

  • Makarova KS, Koonin EV. Annotation and Classification of CRISPR-Cas Systems. Methods Mol Biol. 2015;1311:47-75. doi: 10.1007/978-1-4939-2687-9_4. PubMed PMID: 25981466.
  • Kapitonov VV, Koonin EV. Evolution of the RAG1-RAG2 locus: both proteins came from the same transposon. Biol Direct. 2015 Apr 28;10:20. doi: 10.1186/s13062-015-0055-8. PubMed PMID: 25928409; PubMed Central PMCID: PMC4411706.
  • Faure G, Koonin EV. Universal distribution of mutational effects on protein stability, uncoupling of protein robustness from sequence evolution and distinct evolutionary modes of prokaryotic and eukaryotic proteins. Phys Biol. 2015 Apr 30;12(3):035001. PubMed PMID: 25927823.
  • Yutin N, Kapitonov VV, Koonin EV. A new family of hybrid virophages from an animal gut metagenome. Biol Direct. 2015 Apr 25;10:19. doi: 10.1186/s13062-015-0054-9. PubMed PMID: 25909276; PubMed Central PMCID: PMC4409740.
  • Iranzo J, Lobkovsky AE, Wolf YI, Koonin EV. Immunity, suicide or both? Ecological determinants for the combined evolution of anti-pathogen defense systems. BMC Evol Biol. 2015 Mar 13;15:43. doi: 10.1186/s12862-015-0324-2. PubMed PMID: 25881094; PubMed Central PMCID: PMC4372072.
  • Koonin EV, Dolja VV, Krupovic M. Origins and evolution of viruses of eukaryotes: The ultimate modularity. Virology. 2015 May;479-480:2-25. doi: 10.1016/j.virol.2015.02.039. Epub 2015 Mar 12. Review. PubMed PMID: 25771806.
  • Ran FA, Cong L, Yan WX, Scott DA, Gootenberg JS, Kriz AJ, Zetsche B, Shalem O, Wu X, Makarova KS, Koonin EV, Sharp PA, Zhang F. In vivo genome editing using Staphylococcus aureus Cas9. Nature. 2015 Apr 9;520(7546):186-91. doi: 10.1038/nature14299. Epub 2015 Apr 1. PubMed PMID: 25830891; PubMed Central PMCID: PMC4393360.
  • Makarova KS, Wolf YI, Koonin EV. Archaeal Clusters of Orthologous Genes arCOGs): An Update and Application for Analysis of Shared Features between Thermococcales, Methanococcales, and Methanobacteriales. Life (Basel). 2015 Mar 10;5(1):818-40. doi: 10.3390/life5010818. PubMed PMID: 25764277; PubMed Central PMCID: PMC4390880.
  • Gophna U, Kristensen DM, Wolf YI, Popa O, Drevet C, Koonin EV. No evidence of inhibition of horizontal gene transfer by CRISPR-Cas on evolutionary timescales. ISME J. 2015 Feb 24. doi: 10.1038/ismej.2015.20. [Epub ahead of print] PubMed PMID: 25710183.
  • Krupovic M, Koonin EV. Polintons: a hotbed of eukaryotic virus, transposon and plasmid evolution. Nat Rev Microbiol. 2015 Feb;13(2):105-15. doi: 10.1038/nrmicro3389. Epub 2014 Dec 22. PubMed PMID: 25534808.
  • Koonin EV, Krupovic M. Evolution of adaptive immunity from transposable elements combined with innate immune systems. Nat Rev Genet. 2015 Mar;16(3):184-92. doi: 10.1038/nrg3859. Epub 2014 Dec 9. PubMed PMID: 25488578.

Interviews and opinions