Journal ArticleDOI
Origin and evolution of viruses
John J. Holland,Esteban Domingo +1 more
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P. Schuster and P.F. Stadler, Nature and Evolution of Early Replicons. H.D. Robertson and O.D. Neel, Virus Origins: Conjoined RNA Genomes as Precursors to DNA Genomes. J.S. Semancik and N. Duran-Vila, Viroids in Plants: Shadows and Footprints of a Primitive RNA. C. Biebricher, Mutation, Competition, and Selection as Measured with Small RNA Molecules. A. Meyerhans and J.-P. Vartanian, The Fidelity of Cellular and Viral Polymerases and Its Manipulation for Hypermutagenesis. S. Wain-Hobson and M. Sala, Drift and Conservatism in RNA Virus Evolution: Are They Adapting or Merely Changing? E. Domingo, C. Escarmis, L. Menendez-Aarias, and J.J. Holland, Viral Quasispecies and Fitness Variations. M.A. McClure, The Retroid Agents: Disease, Function, and Evolution. D. Wodarz and M.A. Nowak, Dynamics of HIV Pathogenesis and Treatment. I.M. Rouzine and J.M. Coffin, Interplay between Experiment and Theory in Development of a Working Model for HIV-1 Population Dynamics. A.J. Gibbs, P.L. Keese, M.J. Gibbs, and F. Garcia-Arenal, Plant Virus Evolution: Past, Present, and Future. M. Gromeier, E. Wimmer, and A.E. Gorbalenya, Genetics, Pathogenesis, and Evolution of Picornaviruses. J.I. Esteban, M. Martell, W.F. Carman, and J. Gomez, The Impact of Rapid Evolution of the Hepatitis Viruses. R.G. Webster, Antigenic Variation in Influenza Viruses. L.P. Villarreal, DNA Virus Contribution to Host Evolution. C.R. Parrish and U. Truyen, Parvovirus Variation and Evolution. D.J. McGeoch and A.J. Davison, The Molecular Evolutionary History of the Herpesviruses. J. Salas, M.L. Salas, and E. Vinuela, African Swine Fever Virus: A Missing Link Between Poxviruses and Iridoviruses? Subject Index.read more
Citations
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Possible emergence of new geminiviruses by frequent recombination.
TL;DR: Geminiviruses are a group of plant viruses characterized by a genome of circular single-stranded DNA encapsidated in twinned quasi-isometric particles and recombination is very frequent and occurs between species and within and across genera.
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The evolution of firm networks: from emergence to early growth of the firm
TL;DR: It is suggested that both cohesive and sparse networks are conducive to firm performance when they are aligned with and address firms' evolving resource challenges.
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Present and future arboviral threats.
TL;DR: Viruses such as dengue (DENV) and chikungunya (CHIKV) that have lost the requirement for enzootic amplification now produce extensive epidemics in tropical urban centers, and climate warming could facilitate the expansion of the distributions of many arboviruses.
Journal ArticleDOI
Viral mutation rates.
TL;DR: There appears to be a negative correlation between mutation rate and genome size among RNA viruses, and nucleotide substitutions are on average four times more common than insertions/deletions (indels) in retroviruses.
Journal ArticleDOI
Viral Quasispecies Evolution
TL;DR: The understanding of viruses as quasispecies has led to new antiviral designs, such as lethal mutagenesis, whose aim is to drive viruses toward low fitness values with limited chances of fitness recovery.
References
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Book
The Origins of Order: Self-Organization and Selection in Evolution
TL;DR: The structure of rugged fitness landscapes and the structure of adaptive landscapes underlying protein evolution, and the architecture of genetic regulatory circuits and its evolution.
Journal ArticleDOI
Nested Retrotransposons in the Intergenic Regions of the Maize Genome
Phillip SanMiguel,Alexander Tikhonov,Young Kwan Jin,Natasha Motchoulskaia,Dmitrii Zakharov,Admasu Melake-Berhan,Patricia S. Springer,Keith J. Edwards,Michael Lee,Zoya V Avramova,Jeffrey L. Bennetzen +10 more
TL;DR: Diagnostic sequencing indicated that a 280-kilobase region containing the maize Adh1-F and u22 genes is composed primarily of retrotransposons inserted within each other, and ten retroelement families were discovered.
Journal ArticleDOI
Molecular quasi-species.
TL;DR: 1. The Sequence Space 2. The Kinetic Equations 3. How Realistic is the Kinetic Ansatz? 4. Solutions of the Rate Equations 5. Potential Functions, Optimization, and Guided Evolution 6 . Population Structures Error Threshold.
Journal ArticleDOI
Genetics of poliovirus.
TL;DR: In this article, the authors discuss the role of eDNA and in VITRO SYNTHESIS of INFECTIOUS VIRAL RNA in the selection and generation of mutants.