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Research | 16 February 2021 | Open
Analysis of metagenome-assembled viral genomes from the human gut reveals diverse putative CrAss-like phages with unique genomic features
- Yuri I. Wolf
- Natalya Yutin
- , Sean Benler
- , Sergei A. Shmakov
- , Yuri I. Wolf
- , Igor Tolstoy
- , Mike Rayko
- , Dmitry Antipov
- , Pavel A. Pevzner
- & Eugene V. Koonin
Nature Communications 12 , 1–11

Rights & permissionsfor article Analysis of metagenome-assembled viral genomes from the human gut reveals diverse putative CrAss-like phages with unique genomic features . Opens in a new window.
Amendments and Corrections | 14 December 2020
Publisher Correction: Mutation–selection balance and compensatory mechanisms in tumour evolution
- Yuri I. Wolf
- Erez Persi
- , Yuri I. Wolf
- , David Horn
- , Eytan Ruppin
- , Francesca Demichelis
- , Robert A. Gatenby
- , Robert J. Gillies
- & Eugene V. Koonin
Nature Reviews Genetics , 1–1

Rights & permissionsfor article Publisher Correction: Mutation–selection balance and compensatory mechanisms in tumour evolution . Opens in a new window.
Reviews | 30 November 2020
Mutation–selection balance and compensatory mechanisms in tumour evolution
- Yuri I. Wolf
- Erez Persi
- , Yuri I. Wolf
- , David Horn
- , Eytan Ruppin
- , Francesca Demichelis
- , Robert A. Gatenby
- , Robert J. Gillies
- & Eugene V. Koonin
Nature Reviews Genetics , 1–12

Rights & permissionsfor article Mutation–selection balance and compensatory mechanisms in tumour evolution . Opens in a new window.
Research | 2 October 2020 | Open
Deep phylogeny of cancer drivers and compensatory mutations
- Yuri I. Wolf
Communications Biology 3 , 1–11

Rights & permissionsfor article Deep phylogeny of cancer drivers and compensatory mutations . Opens in a new window.
Research | 29 July 2020 | Open
Machine-learning approach expands the repertoire of anti-CRISPR protein families
- Yuri I. Wolf
Nature Communications 11 , 1–12

Rights & permissionsfor article Machine-learning approach expands the repertoire of anti-CRISPR protein families . Opens in a new window.
Research | 20 July 2020 | Open
Doubling of the known set of RNA viruses by metagenomic analysis of an aquatic virome
- These authors contributed equally: Yuri I. Wolf, Sukrit Silas.
- Yuri I. Wolf
- , Sukrit Silas
- , Yongjie Wang
- , Shuang Wu
- , Michael Bocek
- , Darius Kazlauskas
- , Mart Krupovic
- , Andrew Fire
- , Valerian V. Dolja
- & Eugene V. Koonin
Nature Microbiology 5 , 1262–1270

Rights & permissionsfor article Doubling of the known set of RNA viruses by metagenomic analysis of an aquatic virome . Opens in a new window.
Research | 22 June 2020 | Open
Mapping CRISPR spaceromes reveals vast host-specific viromes of prokaryotes
- Yuri I. Wolf
Communications Biology 3 , 1–9

Rights & permissionsfor article Mapping CRISPR spaceromes reveals vast host-specific viromes of prokaryotes . Opens in a new window.
Research | 6 March 2020 | Open
Interplay between DNA damage repair and apoptosis shapes cancer evolution through aneuploidy and microsatellite instability
- Yuri I. Wolf
Nature Communications 11 , 1–11

Rights & permissionsfor article Interplay between DNA damage repair and apoptosis shapes cancer evolution through aneuploidy and microsatellite instability . Opens in a new window.
Reviews | 19 December 2019
Evolutionary classification of CRISPR–Cas systems: a burst of class 2 and derived variants
- Yuri I. Wolf
- Kira S. Makarova
- , Yuri I. Wolf
- , Jaime Iranzo
- , Sergey A. Shmakov
- , Omer S. Alkhnbashi
- , Stan J. J. Brouns
- , Emmanuelle Charpentier
- , David Cheng
- , Daniel H. Haft
- , Philippe Horvath
- , Sylvain Moineau
- , Francisco J. M. Mojica
- , David Scott
- , Shiraz A. Shah
- , Virginijus Siksnys
- , Michael P. Terns
- , Česlovas Venclovas
- , Malcolm F. White
- , Alexander F. Yakunin
- , Winston Yan
- , Feng Zhang
- , Roger A. Garrett
- , Rolf Backofen
- , John van der Oost
- , Rodolphe Barrangou
- & Eugene V. Koonin
Nature Reviews Microbiology 18 , 67–83

Rights & permissionsfor article Evolutionary classification of CRISPR–Cas systems: a burst of class 2 and derived variants . Opens in a new window.
Research | 26 November 2019 | Open
Gene gain and loss push prokaryotes beyond the homologous recombination barrier and accelerate genome sequence divergence
- Yuri I. Wolf
- Jaime Iranzo
- , Yuri I. Wolf
- , Eugene V. Koonin
- & Itamar Sela
Nature Communications 10 , 1–10

Rights & permissionsfor article Gene gain and loss push prokaryotes beyond the homologous recombination barrier and accelerate genome sequence divergence . Opens in a new window.
Reviews | 14 October 2019
Evolutionary entanglement of mobile genetic elements and host defence systems: guns for hire
- Yuri I. Wolf
Nature Reviews Genetics 21 , 119–131

Rights & permissionsfor article Evolutionary entanglement of mobile genetic elements and host defence systems: guns for hire . Opens in a new window.
Protocols | 13 September 2019
Systematic prediction of functionally linked genes in bacterial and archaeal genomes
- Yuri I. Wolf
Nature Protocols 14 , 3013–3031

Rights & permissionsfor article Systematic prediction of functionally linked genes in bacterial and archaeal genomes . Opens in a new window.
Research | 5 September 2019 | Open
Translational coupling via termination-reinitiation in archaea and bacteria
- Yuri I. Wolf
- Madeleine Huber
- , Guilhem Faure
- , Sebastian Laass
- , Esther Kolbe
- , Kristina Seitz
- , Christina Wehrheim
- , Yuri I. Wolf
- , Eugene V. Koonin
- & Jörg Soppa
Nature Communications 10 , 1–11

Rights & permissionsfor article Translational coupling via termination-reinitiation in archaea and bacteria . Opens in a new window.
Correspondence | 25 February 2019
Reply to ‘Evolutionary placement of Methanonatronarchaeia’
- Yuri I. Wolf
Nature Microbiology 4 , 560–561

Rights & permissionsfor article Reply to ‘Evolutionary placement of Methanonatronarchaeia’ . Opens in a new window.
Comments & Opinion | 20 February 2019
Classify viruses — the gain is worth the pain
- Yuri I. Wolf is a staff scientist at...
- Jens H. Kuhn
- , Yuri I. Wolf
- , Mart Krupovic
- , Yong-Zhen Zhang
- , Piet Maes
- , Valerian V. Dolja
- & Eugene V. Koonin
Nature 566 , 318–320

Rights & permissionsfor article Classify viruses — the gain is worth the pain . Opens in a new window.
Research | 1 November 2018 | Open
Target site specificity and in vivo complexity of the mammalian arginylome
- NPG Nature Publishing Group UK London Nature Research 41598
- Junling Wang
- , Vikas Rao Pejaver
- , Geoffrey P. Dann
- , Max Y. Wolf
- , Manolis Kellis
- , Yun Huang
- , Benjamin A. Garcia
- , Predrag Radivojac
- & Anna Kashina
Scientific Reports 8 , 1–12

Rights & permissionsfor article Target site specificity and <i>in vivo</i> complexity of the mammalian arginylome . Opens in a new window.
Research | 31 July 2018 | Open
Systems analysis of intracellular pH vulnerabilities for cancer therapy
- NPG Nature Publishing Group UK London Nature Research 41467
- Erez Persi
- , Miquel Duran-Frigola
- , Mehdi Damaghi
- , William R. Roush
- , Patrick Aloy
- , John L. Cleveland
- , Robert J. Gillies
- & Eytan Ruppin
Nature Communications 9 , 1–11

Rights & permissionsfor article Systems analysis of intracellular pH vulnerabilities for cancer therapy . Opens in a new window.
Research | 5 July 2017 | Open
‘ARMAN’ archaea depend on association with euryarchaeal host in culture and in situ
- Yuri I. Wolf
Nature Communications 8 , 1–12

Rights & permissionsfor article ‘ARMAN’ archaea depend on association with euryarchaeal host in culture and in situ . Opens in a new window.
Research | 30 May 2017
Discovery of extremely halophilic, methyl-reducing euryarchaea provides insights into the evolutionary origin of methanogenesis
- Yuri I. Wolf
Nature Microbiology 2 , 1–11

Rights & permissionsfor article Discovery of extremely halophilic, methyl-reducing euryarchaea provides insights into the evolutionary origin of methanogenesis . Opens in a new window.
Research | 23 January 2017
Diversity and evolution of class 2 CRISPR–Cas systems
- Yuri I. Wolf is a lead scientist at...
- Sergey Shmakov
- , Aaron Smargon
- , David Scott
- , David Cox
- , Neena Pyzocha
- , Winston Yan
- , Omar O. Abudayyeh
- , Jonathan S. Gootenberg
- , Kira S. Makarova
- , Yuri I. Wolf
- , Konstantin Severinov
- , Feng Zhang
- & Eugene V. Koonin
Nature Reviews Microbiology 15 , 169–182

Rights & permissionsfor article Diversity and evolution of class 2 CRISPR–Cas systems . Opens in a new window.
Research | 18 November 2016 | Open
Positive and strongly relaxed purifying selection drive the evolution of repeats in proteins
- Yuri I. Wolf
Nature Communications 7 , 1–11

Rights & permissionsfor article Positive and strongly relaxed purifying selection drive the evolution of repeats in proteins . Opens in a new window.
Research | 7 November 2016
Two fundamentally different classes of microbial genes
- Yuri I. Wolf
Nature Microbiology 2 , 1–6

Rights & permissionsfor article Two fundamentally different classes of microbial genes . Opens in a new window.
Research | 28 September 2015
An updated evolutionary classification of CRISPR–Cas systems
- Yuri I. Wolf
Nature Reviews Microbiology 13 , 722–736

Rights & permissionsfor article An updated evolutionary classification of CRISPR–Cas systems . Opens in a new window.
Research | 24 February 2015 | Open
No evidence of inhibition of horizontal gene transfer by CRISPR–Cas on evolutionary timescales
- Yuri I Wolf
- Uri Gophna
- , David M Kristensen
- , Yuri I Wolf
- , Ovidiu Popa
- , Christine Drevet
- & Eugene V Koonin
The ISME Journal 9 , 2021–2027

Rights & permissionsfor article No evidence of inhibition of horizontal gene transfer by CRISPR–Cas on evolutionary timescales . Opens in a new window.
Reviews | 9 May 2011
Evolution and classification of the CRISPR–Cas systems
- Yuri I. Wolf graduated from Moscow State University...
Nature Reviews Microbiology 9 , 467–477

Rights & permissionsfor article Evolution and classification of the CRISPR–Cas systems . Opens in a new window.
Reviews | 15 June 2010
Constraints and plasticity in genome and molecular-phenome evolution
- Yuri I. Wolf graduated from Moscow State University...
- Eugene V. Koonin
- & Yuri I. Wolf
Nature Reviews Genetics 11 , 487–498

Rights & permissionsfor article Constraints and plasticity in genome and molecular-phenome evolution . Opens in a new window.
Research | 26 August 2009
Photosystem I gene cassettes are present in marine virus genomes
- Yuri I. Wolf
- Itai Sharon
- , Ariella Alperovitch
- , Forest Rohwer
- , Matthew Haynes
- , Fabian Glaser
- , Nof Atamna-Ismaeel
- , Ron Y. Pinter
- , Frédéric Partensky
- , Eugene V. Koonin
- , Yuri I. Wolf
- , Nathan Nelson
- & Oded Béjà
Nature 461 , 258–262

Rights & permissionsfor article Photosystem I gene cassettes are present in marine virus genomes . Opens in a new window.
Correspondence | 9 February 2009
The complexity of the virus world
- Eugene V. Koonin and Yuri I. Wolf are at the National Center...
Nature Reviews Microbiology 7 , 250–250

Rights & permissionsfor article The complexity of the virus world . Opens in a new window.
Research | 10 November 2008
The Big Bang of picorna-like virus evolution antedates the radiation of eukaryotic supergroups
- Yuri I. Wolf graduated from Moscow State University...
Nature Reviews Microbiology 6 , 925–939

Rights & permissionsfor article The Big Bang of picorna-like virus evolution antedates the radiation of eukaryotic supergroups . Opens in a new window.
Amendments and Corrections | 26 May 2005
Erratum: A universal trend of amino acid gain and loss in protein evolution
- Yuri I. Wolf
Nature 435 , 528–528

Rights & permissionsfor article Erratum: A universal trend of amino acid gain and loss in protein evolution . Opens in a new window.
Research | 19 January 2005
A universal trend of amino acid gain and loss in protein evolution
- Yuri I. Wolf
Nature 433 , 633–638

Rights & permissionsfor article A universal trend of amino acid gain and loss in protein evolution . Opens in a new window.
Reviews | 14 November 2002
The structure of the protein universe and genome evolution
- Yuri I. Wolf
Nature 420 , 218–223

Rights & permissionsfor article The structure of the protein universe and genome evolution . Opens in a new window.

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Analysis of metagenome-assembled viral genomes from the human gut reveals diverse putative CrAss-like phages with unique genomic features

Publisher Correction: Mutation–selection balance and compensatory mechanisms in tumour evolution

Mutation–selection balance and compensatory mechanisms in tumour evolution

Deep phylogeny of cancer drivers and compensatory mutations

Machine-learning approach expands the repertoire of anti-CRISPR protein families

Doubling of the known set of RNA viruses by metagenomic analysis of an aquatic virome

Mapping CRISPR spaceromes reveals vast host-specific viromes of prokaryotes

Interplay between DNA damage repair and apoptosis shapes cancer evolution through aneuploidy and microsatellite instability

Evolutionary classification of CRISPR–Cas systems: a burst of class 2 and derived variants

Gene gain and loss push prokaryotes beyond the homologous recombination barrier and accelerate genome sequence divergence

Evolutionary entanglement of mobile genetic elements and host defence systems: guns for hire

Systematic prediction of functionally linked genes in bacterial and archaeal genomes

Translational coupling via termination-reinitiation in archaea and bacteria

Reply to ‘Evolutionary placement of Methanonatronarchaeia’

Classify viruses — the gain is worth the pain

Target site specificity and in vivo complexity of the mammalian arginylome

Systems analysis of intracellular pH vulnerabilities for cancer therapy

‘ARMAN’ archaea depend on association with euryarchaeal host in culture and in situ

Discovery of extremely halophilic, methyl-reducing euryarchaea provides insights into the evolutionary origin of methanogenesis

Diversity and evolution of class 2 CRISPR–Cas systems

Positive and strongly relaxed purifying selection drive the evolution of repeats in proteins

Two fundamentally different classes of microbial genes

An updated evolutionary classification of CRISPR–Cas systems

No evidence of inhibition of horizontal gene transfer by CRISPR–Cas on evolutionary timescales

Evolution and classification of the CRISPR–Cas systems

Constraints and plasticity in genome and molecular-phenome evolution

Photosystem I gene cassettes are present in marine virus genomes

The complexity of the virus world

The Big Bang of picorna-like virus evolution antedates the radiation of eukaryotic supergroups

Erratum: A universal trend of amino acid gain and loss in protein evolution

A universal trend of amino acid gain and loss in protein evolution

The structure of the protein universe and genome evolution

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