Literature DB >> 26965225

Are viruses alive? The replicator paradigm sheds decisive light on an old but misguided question.

Eugene V Koonin1, Petro Starokadomskyy2.   

Abstract

The question whether or not "viruses are alive" has caused considerable debate over many years. Yet, the question is effectively without substance because the answer depends entirely on the definition of life or the state of "being alive" that is bound to be arbitrary. In contrast, the status of viruses among biological entities is readily defined within the replicator paradigm. All biological replicators form a continuum along the selfishness-cooperativity axis, from the completely selfish to fully cooperative forms. Within this range, typical, lytic viruses represent the selfish extreme whereas temperate viruses and various mobile elements occupy positions closer to the middle of the range. Selfish replicators not only belong to the biological realm but are intrinsic to any evolving system of replicators. No such system can evolve without the emergence of parasites, and moreover, parasites drive the evolution of biological complexity at multiple levels. The history of life is a story of parasite-host coevolution that includes both the incessant arms race and various forms of cooperation. All organisms are communities of interacting, coevolving replicators of different classes. A complete theory of replicator coevolution remains to be developed, but it appears likely that not only the differentiation between selfish and cooperative replicators but the emergence of the entire range of replication strategies, from selfish to cooperative, is intrinsic to biological evolution. Published by Elsevier Ltd.

Entities:  

Keywords:  Evolvability; Host-parasite coevolution; Replicators; Selfish elements; Viruses

Mesh:

Year:  2016        PMID: 26965225      PMCID: PMC5406846          DOI: 10.1016/j.shpsc.2016.02.016

Source DB:  PubMed          Journal:  Stud Hist Philos Biol Biomed Sci        ISSN: 1369-8486


  106 in total

1.  Genomic scrap yard: how genomes utilize all that junk.

Authors:  W Makałowski
Journal:  Gene       Date:  2000-12-23       Impact factor: 3.688

2.  The 1.2-megabase genome sequence of Mimivirus.

Authors:  Didier Raoult; Stéphane Audic; Catherine Robert; Chantal Abergel; Patricia Renesto; Hiroyuki Ogata; Bernard La Scola; Marie Suzan; Jean-Michel Claverie
Journal:  Science       Date:  2004-10-14       Impact factor: 47.728

3.  The role of complex formation and deleterious mutations for the stability of RNA-like replicator systems.

Authors:  Nobuto Takeuchi; Paulien Hogeweg
Journal:  J Mol Evol       Date:  2007-10-23       Impact factor: 2.395

4.  Is it useful to have a clear-cut definition of life? On the use of fuzzy logic in prebiotic chemistry.

Authors:  Gilles Bruylants; Kristin Bartik; Jacques Reisse
Journal:  Orig Life Evol Biosph       Date:  2010-03-05       Impact factor: 1.950

Review 5.  Viral strategies of immune evasion.

Authors:  H L Ploegh
Journal:  Science       Date:  1998-04-10       Impact factor: 47.728

6.  Group selection of early replicators and the origin of life.

Authors:  E Szathmáry; L Demeter
Journal:  J Theor Biol       Date:  1987-10-21       Impact factor: 2.691

7.  Phage auxiliary metabolic genes and the redirection of cyanobacterial host carbon metabolism.

Authors:  Luke R Thompson; Qinglu Zeng; Libusha Kelly; Katherine H Huang; Alexander U Singer; Joanne Stubbe; Sallie W Chisholm
Journal:  Proc Natl Acad Sci U S A       Date:  2011-08-15       Impact factor: 11.205

Review 8.  Learning to live together: mutualism between self-splicing introns and their hosts.

Authors:  David R Edgell; Venkata R Chalamcharla; Marlene Belfort
Journal:  BMC Biol       Date:  2011-04-11       Impact factor: 7.431

9.  Related giant viruses in distant locations and different habitats: Acanthamoeba polyphaga moumouvirus represents a third lineage of the Mimiviridae that is close to the megavirus lineage.

Authors:  Niyaz Yoosuf; Natalya Yutin; Philippe Colson; Svetlana A Shabalina; Isabelle Pagnier; Catherine Robert; Said Azza; Thomas Klose; Jimson Wong; Michael G Rossmann; Bernard La Scola; Didier Raoult; Eugene V Koonin
Journal:  Genome Biol Evol       Date:  2012       Impact factor: 3.416

10.  Functional relationships between plasmids and their significance for metabolism and symbiotic performance of Rhizobium leguminosarum bv. trifolii.

Authors:  Grażyna Stasiak; Andrzej Mazur; Jerzy Wielbo; Małgorzata Marczak; Kamil Zebracki; Piotr Koper; Anna Skorupska
Journal:  J Appl Genet       Date:  2014-05-17       Impact factor: 3.240

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  22 in total

1.  Stable coevolutionary regimes for genetic parasites and their hosts: you must differ to coevolve.

Authors:  Faina Berezovskaya; Georgy P Karev; Mikhail I Katsnelson; Yuri I Wolf; Eugene V Koonin
Journal:  Biol Direct       Date:  2018-12-14       Impact factor: 4.540

Review 2.  Genetic conflicts: the usual suspects and beyond.

Authors:  Richard N McLaughlin; Harmit S Malik
Journal:  J Exp Biol       Date:  2017-01-01       Impact factor: 3.312

Review 3.  Global Organization and Proposed Megataxonomy of the Virus World.

Authors:  Eugene V Koonin; Valerian V Dolja; Mart Krupovic; Arvind Varsani; Yuri I Wolf; Natalya Yutin; F Murilo Zerbini; Jens H Kuhn
Journal:  Microbiol Mol Biol Rev       Date:  2020-03-04       Impact factor: 11.056

4.  Cationic Surfactants as Disinfectants against SARS-CoV-2.

Authors:  Eduard V Karamov; Viktor F Larichev; Galina V Kornilaeva; Irina T Fedyakina; Ali S Turgiev; Andrey V Shibaev; Vyacheslav S Molchanov; Olga E Philippova; Alexei R Khokhlov
Journal:  Int J Mol Sci       Date:  2022-06-14       Impact factor: 6.208

Review 5.  Origin of viruses: primordial replicators recruiting capsids from hosts.

Authors:  Mart Krupovic; Valerian V Dolja; Eugene V Koonin
Journal:  Nat Rev Microbiol       Date:  2019-07       Impact factor: 60.633

6.  Possibility and Challenges of Conversion of Current Virus Species Names to Linnaean Binomials.

Authors:  Thomas S Postler; Anna N Clawson; Gaya K Amarasinghe; Christopher F Basler; Sbina Bavari; Mária Benko; Kim R Blasdell; Thomas Briese; Michael J Buchmeier; Alexander Bukreyev; Charles H Calisher; Kartik Chandran; Rémi Charrel; Christopher S Clegg; Peter L Collins; De La Torre Juan Carlos; Joseph L Derisi; Ralf G Dietzgen; Olga Dolnik; Ralf Dürrwald; John M Dye; Andrew J Easton; Sébastian Emonet; Pierre Formenty; Ron A M Fouchier; Elodie Ghedin; Jean-Paul Gonzalez; Balázs Harrach; Roger Hewson; Masayuki Horie; Dàohóng Jiang; Gary Kobinger; Hideki Kondo; Andrew M Kropinski; Mart Krupovic; Gael Kurath; Robert A Lamb; Eric M Leroy; Igor S Lukashevich; Andrea Maisner; Arcady R Mushegian; Sergey V Netesov; Norbert Nowotny; Jean L Patterson; Susan L Payne; Janusz T PaWeska; Clarence J Peters; Sheli R Radoshitzky; Bertus K Rima; Victor Romanowski; Dennis Rubbenstroth; Sead Sabanadzovic; Hélène Sanfaçon; Maria S Salvato; Martin Schwemmle; Sophie J Smither; Mark D Stenglein; David M Stone; Ayato Takada; Robert B Tesh; Keizo Tomonaga; Noël Tordo; Jonathan S Towner; Nikos Vasilakis; Viktor E Volchkov; Victoria Wahl-Jensen; Peter J Walker; Lin-Fa Wang; Arvind Varsani; Anna E Whitfield; F Murilo Zerbini; Jens H Kuhn
Journal:  Syst Biol       Date:  2017-05-01       Impact factor: 15.683

Review 7.  Evolving Perspective on the Origin and Diversification of Cellular Life and the Virosphere.

Authors:  Anja Spang; Tara A Mahendrarajah; Pierre Offre; Courtney W Stairs
Journal:  Genome Biol Evol       Date:  2022-05-31       Impact factor: 4.065

Review 8.  Viruses and mobile elements as drivers of evolutionary transitions.

Authors:  Eugene V Koonin
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2016-08-19       Impact factor: 6.237

Review 9.  Standing on the Shoulders of Giant Viruses: Five Lessons Learned about Large Viruses Infecting Small Eukaryotes and the Opportunities They Create.

Authors:  Steven W Wilhelm; Samantha R Coy; Eric R Gann; Mohammad Moniruzzaman; Joshua M A Stough
Journal:  PLoS Pathog       Date:  2016-08-25       Impact factor: 6.823

10.  Inevitability of Genetic Parasites.

Authors:  Jaime Iranzo; Pere Puigbò; Alexander E Lobkovsky; Yuri I Wolf; Eugene V Koonin
Journal:  Genome Biol Evol       Date:  2016-09-26       Impact factor: 3.416

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