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1

Origin and Evolution of the Universal Genetic Code

Koonin, Eugene V., Novozhilov, Artem S.

Journal:

Annual Review of Genetics

Année:

2017

Langue:

english

Fichier:

PDF, 745 KB

english, 2017

2

Classification and Nomenclature of CRISPR-Cas Systems: Where from Here?

Makarova, Kira S., Wolf, Yuri I., Koonin, Eugene V.

Journal:

The CRISPR Journal

Année:

2018

Langue:

english

Fichier:

PDF, 4.36 MB

english, 2018

3

Diversity, classification and evolution of CRISPR-Cas systems

Koonin, Eugene V, Makarova, Kira S, Zhang, Feng

Journal:

Current Opinion in Microbiology

Année:

2017

Langue:

english

Fichier:

PDF, 1.96 MB

english, 2017

4

Lamarckian or not, CRISPR-Cas is an elaborate engine of directed evolution

Koonin, Eugene V.

Journal:

Biology & Philosophy

Année:

2019

Langue:

english

Fichier:

PDF, 601 KB

english, 2019

5

Origin and evolution of the genetic code: The universal enigma

Eugene V. Koonin, Artem S. Novozhilov

Journal:

Année:

2009

Langue:

english

Fichier:

PDF, 304 KB

english, 2009

6

Classification and quantification of bacteriophage taxa in human gut metagenomes

Waller, Alison S, Yamada, Takuji, Kristensen, David M, Kultima, Jens Roat, Sunagawa, Shinichi, Koonin, Eugene V, Bork, Peer

Journal:

The ISME Journal

Année:

2014

Langue:

english

Fichier:

PDF, 1.20 MB

english, 2014

7

The enigmatic archaeal virosphere

Prangishvili, David, Bamford, Dennis H., Forterre, Patrick, Iranzo, Jaime, Koonin, Eugene V., Krupovic, Mart

Journal:

Nature Reviews Microbiology

Année:

2017

Langue:

english

Fichier:

PDF, 7.66 MB

english, 2017

8

The virophage as a unique parasite of the giant mimivirus

La Scola, Bernard, Desnues, Christelle, Pagnier, Isabelle, Robert, Catherine, Barrassi, Lina, Fournous, Ghislain, Merchat, Michèle, Suzan-Monti, Marie, Forterre, Patrick, Koonin, Eugene

Journal:

Année:

2008

Langue:

english

Fichier:

PDF, 663 KB

english, 2008

9

On the origin of genomes and cells within inorganic compartments

Eugene V. Koonin, William Martin

Journal:

Trends in Genetics

Année:

2005

Langue:

english

Fichier:

PDF, 534 KB

english, 2005

10

Dark matter in archaeal genomes: a rich source of novel mobile elements, defense systems and secretory complexes

Makarova, Kira S., Wolf, Yuri I., Forterre, Patrick, Prangishvili, David, Krupovic, Mart, Koonin, Eugene V.

Journal:

Année:

2014

Langue:

english

Fichier:

PDF, 2.28 MB

english, 2014

11

Viruses of archaea: Structural, functional, environmental and evolutionary genomics

Krupovic, Mart, Cvirkaite-Krupovic, Virginija, Iranzo, Jaime, Prangishvili, David, Koonin, Eugene V.

Journal:

Année:

2018

Langue:

english

Fichier:

PDF, 2.61 MB

english, 2018

12

Physical foundations of biological complexity

Wolf, Yuri I., Katsnelson, Mikhail I., Koonin, Eugene V.

Journal:

Proceedings of the National Academy of Sciences

Année:

2018

Langue:

english

Fichier:

PDF, 843 KB

english, 2018

13

Classify viruses — the gain is worth the pain

Kuhn, Jens H., Wolf, Yuri I., Krupovic, Mart, Zhang, Yong-Zhen, Maes, Piet, Dolja, Valerian V., Koonin, Eugene V.

Journal:

Année:

2019

Langue:

english

Fichier:

PDF, 2.28 MB

english, 2019

14

Predator Dormancy is a Stable Adaptive Strategy due to Parrondo's Paradox

Tan, Zhi‐Xuan, Koh, Jin Ming, Koonin, Eugene V., Cheong, Kang Hao

Journal:

Advanced Science

Année:

2019

Langue:

english

Fichier:

PDF, 1.86 MB

english, 2019

15

How stands the Tree of Life a century and a half afterThe Origin?

Maureen A O’Malley, Eugene V Koonin

Journal:

Année:

2011

Langue:

english

Fichier:

PDF, 520 KB

english, 2011

16

Unification of Cas protein families and a simple scenario for the origin and evolution of CRISPR-Cas systems

Kira S Makarova, L Aravind, Yuri I Wolf, Eugene V Koonin

Journal:

Année:

2011

Langue:

english

Fichier:

PDF, 2.97 MB

english, 2011

17

The common ancestry of life

Eugene V Koonin, Yuri I Wolf

Journal:

Année:

2010

Langue:

english

Fichier:

PDF, 397 KB

english, 2010

18

ORTHOLOGS, PARALOGS, AND EVOLUTIONARY GENOMICS1

Koonin, Eugene V.

Journal:

Annual Review of Genetics

Année:

2005

Langue:

english

Fichier:

PDF, 758 KB

english, 2005

19

The Origin at 150: is a new evolutionary synthesis in sight?

Eugene V. Koonin

Journal:

Trends in Genetics

Année:

2009

Langue:

english

Fichier:

PDF, 123 KB

english, 2009

20

Classification and evolution of P-loop GTPases and related ATPases

Detlef D Leipe, Yuri I Wolf, Eugene V Koonin, L Aravind

Journal:

Journal of Molecular Biology

Année:

2002

Langue:

english

Fichier:

PDF, 1.61 MB

english, 2002

21

The cosmological model of eternal inflation and the transition from chance to biological evolution in the history of life

Eugene V Koonin

Journal:

Année:

2007

Langue:

english

Fichier:

PDF, 374 KB

english, 2007

22

Virophages, polintons, and transpovirons: a complex evolutionary network of diverse selfish genetic elements with different reproduction strategies

Natalya Yutin, Didier Raoult, Eugene V Koonin

Journal:

Virology Journal

Année:

2013

Langue:

english

Fichier:

PDF, 1.09 MB

english, 2013

23

Pseudo-chaotic oscillations in CRISPR-virus coevolution predicted by bifurcation analysis

Faina S Berezovskaya,Yuri I Wolf,Eugene V Koonin,Georgy P Karev

Journal:

Année:

2014

Langue:

english

Fichier:

PDF, 1.75 MB

english, 2014

24

Evolution of the CRISPR-Cas adaptive immunity systems in prokaryotes: models and observations on virus–host coevolution

Koonin, Eugene V., Wolf, Yuri I.

Journal:

Molecular BioSystems

Année:

2015

Langue:

english

Fichier:

PDF, 1.91 MB

english, 2015

25

Genome reduction as the dominant mode of evolution

Wolf, Yuri I., Koonin, Eugene V.

Journal:

Année:

2013

Langue:

english

Fichier:

PDF, 190 KB

english, 2013

26

Carl Woese's vision of cellular evolution and the domains of life

Koonin, Eugene V

Journal:

Année:

2014

Langue:

english

Fichier:

PDF, 946 KB

english, 2014

27

A new family of hybrid virophages from an animal gut metagenome

Yutin, Natalya, Kapitonov, Vladimir V, Koonin, Eugene V

Journal:

Année:

2015

Langue:

english

Fichier:

PDF, 510 KB

english, 2015

28

Polintons, virophages and transpovirons: a tangled web linking viruses, transposons and immunity

Koonin, Eugene V, Krupovic, Mart

Journal:

Current Opinion in Virology

Année:

2017

Langue:

english

Fichier:

PDF, 499 KB

english, 2017

29

Towards physical principles of biological evolution

Katsnelson, Mikhail I, Wolf, Yuri I, Koonin, Eugene V

Journal:

Physica Scripta

Année:

2018

Langue:

english

Fichier:

PDF, 1.11 MB

english, 2018

30

Frozen Accident Pushing 50: Stereochemistry, Expansion, and Chance in the Evolution of the Genetic Code

Journal:

Année:

2017

Langue:

english

Fichier:

PDF, 1005 KB

english, 2017

31

Microbial genomics challenge Darwin

Raoult, Didier, Koonin, Eugene V.

Journal:

Frontiers in Cellular and Infection Microbiology

Année:

2012

Langue:

english

Fichier:

PDF, 405 KB

english, 2012

32

The depths of virus exaptation

Koonin, Eugene V, Krupovic, Mart

Journal:

Current Opinion in Virology

Année:

2018

Langue:

english

Fichier:

PDF, 458 KB

english, 2018

33

[Advances in Virus Research] || Evolution of the Large Nucleocytoplasmic DNA Viruses of Eukaryotes and Convergent Origins of Viral Gigantism

Koonin, Eugene V.

Année:

2018

Langue:

english

Fichier:

PDF, 948 KB

english, 2018

34

Deep Roots and Splendid Boughs of the Global Plant Virome

Dolja, Valerian V., Krupovic, Mart, Koonin, Eugene V.

Journal:

Annual Review of Phytopathology

Année:

2020

Fichier:

PDF, 4.71 MB

2020

35

The LUCA and its complex virome

Krupovic, Mart, Dolja, Valerian V., Koonin, Eugene V.

Journal:

Nature Reviews Microbiology

Année:

2020

Fichier:

PDF, 1.65 MB

2020

36

Scale-free networks in biology: new insights into the fundamentals of evolution?

Yuri I. Wolf, Georgy Karev, Eugene V. Koonin

Journal:

Année:

2002

Langue:

english

Fichier:

PDF, 96 KB

english, 2002

37

Planctomycetes and eukaryotes: A case of analogy not homology

James O. McInerney, William F. Martin, Eugene V. Koonin, John F. Allen, Michael Y. Galperin, Nick Lane, John M. Archibald, T. Martin Embley

Journal:

Année:

2011

Langue:

english

Fichier:

PDF, 115 KB

english, 2011

38

Sequence analysis of an exceptionally conserved operon suggests enzymes for a new link between histidine and purine biosynthesis

Michael Y. Galperin, Eugene V. Koonin

Journal:

Molecular Microbiology

Année:

1997

Langue:

english

Fichier:

PDF, 661 KB

english, 1997

39

Comparison of archaeal and bacterial genomes: computer analysis of protein sequences predicts novel functions and suggests a chimeric origin for the archaea

Eugene V. Koonin, Arcady R. Mushegian, Michael Y. Galperin, D. Roland Walker

Journal:

Molecular Microbiology

Année:

1997

Langue:

english

Fichier:

PDF, 1.22 MB

english, 1997

40

Two domains of superfamily I helicases may exist as separate proteins

Eugene V. Koonin, Kenneth E. Rudd

Journal:

Protein Science

Année:

1996

Langue:

english

Fichier:

PDF, 1.58 MB

english, 1996

41

On the Origin of Cells and Viruses : Primordial Virus World Scenario

Eugene V. Koonin

Journal:

Annals of the New York Academy of Sciences

Année:

2009

Langue:

english

Fichier:

PDF, 408 KB

english, 2009

42

Apoptosis: Searching for FLASH domains

Koonin, Eugene V., Aravind, L., Hofmann, Kay, Tschopp, Jurg, Dixit, Vishva M.

Journal:

Année:

1999

Langue:

english

Fichier:

PDF, 122 KB

english, 1999

43

Introns and the origin of nucleus–cytosol compartmentalization

Martin, William, Koonin, Eugene V.

Journal:

Année:

2006

Langue:

english

Fichier:

PDF, 235 KB

english, 2006

44

Comparative genomics, minimal gene-sets and the last universal common ancestor

Koonin, Eugene V.

Journal:

Nature Reviews Microbiology

Année:

2003

Langue:

english

Fichier:

PDF, 299 KB

english, 2003

45

The ancient Virus World and evolution of cells

Eugene V Koonin, Tatiana G Senkevich, Valerian V Dolja

Journal:

Année:

2006

Langue:

english

Fichier:

PDF, 2.02 MB

english, 2006

46

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

Journal:

Année:

2006

Langue:

english

Fichier:

PDF, 884 KB

english, 2006

47

Genome Structure and Phylogenetic Analysis of Lettuce Infectious Yellows Virus, a Whitefly-Transmitted, Bipartite Closterovirus

Vicki A. Klaassen, Maury L. Boeshore, Eugene V. Koonin, Tongyan Tian, Bryce W. Falk

Journal:

Année:

1995

Fichier:

PDF, 715 KB

1995

48

The complete sequence (22 kilobases) of murine coronavirus gene 1 encoding the putative proteases and RNA polymerase

Han-Jung Lee, Chien-Kou Shieh, Alexander E. Gorbalenya, Eugene V. Koonin, Nicola La Monica, Jeremy Tuler, Anush Bagdzhadzhyan, Michael M.C. Lai

Journal:

Année:

1991

Langue:

english

Fichier:

PDF, 1.61 MB

english, 1991

49

Genome trees and the tree of life

Yuri I. Wolf, Igor B. Rogozin, Nick V. Grishin, Eugene V. Koonin

Journal:

Trends in Genetics

Année:

2002

Langue:

english

Fichier:

PDF, 64 KB

english, 2002

50

Rickettsiae and Chlamydiae: evidence of horizontal gene transfer and gene exchange

Yuri I. Wolf, L. Aravind, Eugene V. Koonin

Journal:

Trends in Genetics

Année:

1999

Langue:

english

Fichier:

PDF, 117 KB

english, 1999