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Lista de obras de Santiago F. Elena

A Sliding Window-Based Method to Detect Selective Constraints in Protein-Coding Genes and Its Application to RNA Viruses

article

A meta-analysis reveals the commonalities and differences in Arabidopsis thaliana response to different viral pathogens

artículo científico publicado en 2012

A putative antiviral role of plant cytidine deaminases

artículo científico publicado en 2017

A real-time RT-PCR assay for quantifying the fitness of tobacco etch virus in competition experiments

artículo científico publicado en 2006

A systems biology approach to the evolution of plant-virus interactions.

artículo científico publicado en 2011

Adaptation of tobacco etch potyvirus to a susceptible ecotype of Arabidopsis thaliana capacitates it for systemic infection of resistant ecotypes

artículo científico publicado en 2010

Adaptation of turnip mosaic potyvirus to a specific niche reduces its genetic and environmental robustness

artículo científico publicado en 2020

Adaptive covariation between the coat and movement proteins of prunus necrotic ringspot virus

artículo científico publicado en 2006

Adaptive value of high mutation rates of RNA viruses: separating causes from consequences

artículo científico publicado en 2005

Advances in plant virus evolution: translating evolutionary insights into better disease management

artículo científico publicado en 2011

Analysis of epistatic interactions and fitness landscapes using a new geometric approach

artículo científico publicado en 2007

Application of game theory to the interaction between plant viruses during mixed infections

article

Changes in the gene expression profile of Arabidopsis thaliana after infection with Tobacco etch virus

artículo científico publicado en 2008

Clonal interference and the evolution of RNA viruses.

artículo científico publicado en 1999

Coinfection and superinfection in RNA virus populations: a selection-mutation model

artículo científico publicado en 2003

Compensatory molecular evolution of HC-Pro, an RNA-silencing suppressor from a plant RNA virus

artículo científico publicado en 2009

Computational design of genomic transcriptional networks with adaptation to varying environments

artículo científico publicado en 2012

Computational design of host transcription-factors sets whose misregulation mimics the transcriptomic effect of viral infections

artículo científico publicado en 2012

Contribution of recombination and selection to molecular evolution of Citrus tristeza virus

artículo científico publicado en 2009

DVGfinder: A Metasearch Tool for Identifying Defective Viral Genomes in RNA-Seq Data ⬇️

artículo científico publicado en 2022

Differences in accumulation and virulence determine the outcome of competition during Tobacco etch virus coinfection

artículo científico publicado en 2011

Differential effects of vertical and horizontal transmission in the fitness of an RNA virus: A reanalysis

article

Diminishing returns of population size in the rate of RNA virus adaptation

artículo científico publicado en 2000

Distribution of Fitness and Virulence Effects Caused by Single-Nucleotide Substitutions in Tobacco Etch Virus

artículo científico publicado en 2007

Distribution of fitness effects caused by random insertion mutations in Escherichia coli

artículo científico publicado en 1998

Distribution of mutational fitness effects and of epistasis in the 5' untranslated region of a plant RNA virus

artículo científico publicado en 2015

Distributions of epistasis in microbes fit predictions from a fitness landscape model.

artículo científico publicado en 2007

Dynamics of a plant RNA virus intracellular accumulation: stamping machine vs. geometric replication

artículo científico

Dynamics of alternative modes of RNA replication for positive-sense RNA viruses

artículo científico publicado en 2011

Dynamics of molecular evolution and phylogeography of Barley yellow dwarf virus-PAV.

artículo científico publicado en 2011

Dynamics of the Establishment of Systemic Potyvirus Infection: Independent yet Cumulative Action of Primary Infection Sites ⬇️

artículo científico publicado el 19 de septiembre de 2012

EPISTASIS BETWEEN NEW MUTATIONS AND GENETIC BACKGROUND AND A TEST OF GENETIC CANALIZATION

scientific article published on 01 September 2001

EVOLUTIONARY DYNAMICS OF FITNESS RECOVERY FROM THE DEBILITATING EFFECTS OF MULLER'S RATCHET.

artículo científico publicado en 1998

Effect of citrus hosts on the generation, maintenance and evolutionary fate of genetic variability of citrus exocortis viroid

artículo científico publicado en 2009

Effect of host species on the distribution of mutational fitness effects for an RNA virus

artículo científico publicado en 2011

Effect of host species on the topography of fitness landscape for a plant RNA virus.

artículo científico publicado en 2016

Effects of Potyvirus Effective Population Size in Inoculated Leaves on Viral Accumulation and the Onset of Symptoms ⬇️

artículo científico publicado el 27 de junio de 2012

Effects of population size and mutation rate on the evolution of mutational robustness

artículo científico publicado en 2007

Efficient escape from local optima in a highly rugged fitness landscape by evolving RNA virus populations

artículo científico publicado en 2016

Emerging viruses: why they are not jacks of all trades?

artículo científico publicado en 2014

Endosymbiotic bacteria: groEL buffers against deleterious mutations

artículo científico publicado en 2002

Environmental stress and the effects of mutation

artículo científico publicado en 2003

Epistasis and the adaptability of an RNA virus

artículo científico publicado en 2005

Epistasis correlates to genomic complexity

artículo científico publicado en 2006

Error threshold in RNA quasispecies models with complementation

article

Evaluating the within-host fitness effects of mutations fixed during virus adaptation to different ecotypes of a new host

artículo científico publicado en 2015

Evolution of RNA virus in spatially structured heterogeneous environments

artículo científico publicado en 2003

Evolution. Climb every mountain?

artículo científico publicado en 2003

Evolutionary Constraints to Viroid Evolution ⬇️

artículo científico publicado el 2 de septiembre de 2009

Evolutionary Dynamics of Fitness Recovery from the Debilitating Effects of Muller's Ratchet

article

Evolutionary history conditions the timing of transmission in vesicular stomatitis virus

artículo científico publicado en 2001

Evolutionary relationships among members of the Bromoviridae deduced from whole proteome analysis

artículo científico publicado en 2005

Evolutionary transitions during RNA virus experimental evolution

artículo científico publicado en 2016

Experimental evolution of plant RNA viruses

artículo científico publicado en 2008

Exponential increases of RNA virus fitness during large population transmissions

artículo científico publicado en 1995

Extremely high mutation rate of a hammerhead viroid

artículo científico publicado en 2009

FREQUENCY-DEPENDENT SELECTION IN A MAMMALIAN RNA VIRUS.

artículo científico publicado en 1997

Faculty of 1000 evaluation for A virus responds instantly to the presence of the vector on the host and forms transmission morphs

article

Faculty of 1000 evaluation for Bacteria-phage coevolution and the emergence of generalist pathogens

Faculty of 1000 evaluation for Beyond the consensus: dissecting within-host viral population diversity of foot-and-mouth disease virus by using next-generation genome sequencing

Faculty of 1000 evaluation for Codon usage determines the mutational robustness, evolutionary capacity, and virulence of an RNA virus

Faculty of 1000 evaluation for Epistasis between beneficial mutations and the phenotype-to-fitness Map for a ssDNA virus

Faculty of 1000 evaluation for Genomic analysis of a key innovation in an experimental Escherichia coli population

article

Faculty of 1000 evaluation for Modelling the evolutionary dynamics of viruses within their hosts: a case study using high-throughput sequencing

Faculty of 1000 evaluation for Molecular evolution in court: analysis of a large hepatitis C virus outbreak from an evolving source

article published in 2013

Faculty of 1000 evaluation for Mutation of HIV-1 genomes in a clinical population treated with the mutagenic nucleoside KP1461

article

Faculty of 1000 evaluation for Mutational robustness of an RNA virus influences sensitivity to lethal mutagenesis

Faculty of 1000 evaluation for Reciprocal gene loss following experimental whole-genome duplication causes reproductive isolation in yeast

Faculty of 1000 evaluation for Single-Cell Analysis of RNA Virus Infection Identifies Multiple Genetically Diverse Viral Genomes within Single Infectious Units

Faculty of 1000 evaluation for The environment affects epistatic interactions to alter the topology of an empirical fitness landscape

Faculty of 1000 evaluation for The length of adaptive walks is insensitive to starting fitness in Aspergillus nidulans

Faculty of 1000 evaluation for Variation in RNA Virus Mutation Rates across Host Cells

Fine-tuning tomato agronomic properties by computational genome redesign

artículo científico publicado en 2012

Fitness declines in Tobacco etch virus upon serial bottleneck transfers

artículo científico publicado en 2007

Frequency-Dependent Selection in a Mammalian RNA Virus

From hypo- to hypersuppression: effect of amino acid substitutions on the RNA-silencing suppressor activity of the Tobacco etch potyvirus HC-Pro

artículo científico publicado en 2008

Genetic diversity of the movement and coat protein genes of South American isolates of Prunus necrotic ringspot virus.

artículo científico publicado en 2008

Going, going, gone: predicting the fate of genomic insertions in plant RNA viruses.

artículo científico publicado en 2018

HC-Pro hypo- and hypersuppressor mutants: differences in viral siRNA accumulation in vivo and siRNA binding activity in vitro

artículo científico publicado en 2009

High genetic stability in natural populations of the plant RNA virus tobacco mild green mosaic virus

article

Host-virus evolutionary dynamics with specialist and generalist infection strategies: Bifurcations, bistability, and chaos

scientific article published on 01 May 2020

In silico predicted robustness of viroid RNA secondary structures. II. Interaction between mutation pairs

artículo científico publicado en 2006

In silico predicted robustness of viroids RNA secondary structures. I. The effect of single mutations

artículo científico publicado en 2006

Innate immune pathways act synergistically to constrain RNA virus evolution in Drosophila melanogaster

artículo científico publicado en 2022

Insights into the selective pressures restricting Pelargonium flower break virus genome variability: Evidence for host adaptation.

artículo científico publicado en 2006

Intraclonal variation in RNA viruses: generation, maintenance and consequences

Is group selection a factor modulating the virulence of RNA viruses?

artículo científico publicado en 1997

LONG-TERM EXPERIMENTAL EVOLUTION IN ESCHERICHIA COLI. VII. MECHANISMS MAINTAINING GENETIC VARIABILITY WITHIN POPULATIONS.

artículo científico publicado en 1997

Little evidence for synergism among deleterious mutations in a nonsegmented RNA virus

artículo científico publicado en 1999

Long-Term Experimental Evolution in Escherichia coli. VII. Mechanisms Maintaining Genetic Variability Within Populations

scholarly article by Santiago F. Elena & Richard E. Lenski published August 1997 in Evolution

Low genetic variability in the coat and movement proteins of American plum line pattern virus isolates from different geographic origins

artículo científico publicado en 2007

Luria-delbruck estimation of turnip mosaic virus mutation rate in vivo

artículo científico publicado en 2012

Magnitude and sign epistasis among deleterious mutations in a positive-sense plant RNA virus

artículo científico publicado en 2012

Measuring selection coefficients below 10(-3): method, questions, and prospects

artículo científico publicado en 2011

Mechanisms of genetic robustness in RNA viruses

artículo científico publicado en 2006

Microbial genetics: Evolution experiments with microorganisms: the dynamics and genetic bases of adaptation

artículo científico publicado en 2003

Mixed infections of Pepino mosaic virus strains modulate the evolutionary dynamics of this emergent virus

artículo científico publicado en 2009

Mode of selection and experimental evolution of antiviral drugs resistance in vesicular stomatitis virus

artículo científico publicado en 2005

Modeling multipartite virus evolution: the genome formula facilitates rapid adaptation to heterogeneous environments†

scientific article published on 01 January 2020

Molecular evolution and phylogeography of potato virus Y based on the CP gene

artículo científico publicado en 2012

Molecular evolution of a viral non-coding sequence under the selective pressure of amiRNA-mediated silencing

artículo científico publicado en 2009

Molecular evolution of the plant virus family Bromoviridae based on RNA3-encoded proteins

artículo científico publicado en 2005

Multihost experimental evolution of a plant RNA virus reveals local adaptation and host-specific mutations

artículo científico publicado en 2011

NATURAL SELECTION AND THE ORGAN-SPECIFIC DIFFERENTIATION OF HIV-1 V3 HYPERVARIABLE REGION

article

Natural selection fails to optimize mutation rates for long-term adaptation on rugged fitness landscapes

artículo científico publicado en 2008

Network design meets in silico evolutionary biology

artículo científico publicado en 2010

New experimental and theoretical approaches towards the understanding of the emergence of viral infections. Introduction

artículo científico publicado en 2010

Nonlinear trade-offs allow the cooperation game to evolve from Prisoner's Dilemma to Snowdrift

artículo científico publicado en 2017

One Is Enough: In Vivo Effective Population Size Is Dose-Dependent for a Plant RNA Virus ⬇️

artículo científico publicado el 7 de julio de 2011

Optimal viral strategies for bypassing RNA silencing

artículo científico publicado en 2010

PERSPECTIVE:EVOLUTION AND DETECTION OF GENETIC ROBUSTNESS

Parasites and mutational load: an experimental test of a pluralistic theory for the evolution of sex.

artículo científico publicado en 2005

Parsimonious Scenario for the Emergence of Viroid-Like Replicons De Novo

artículo científico publicado en 2019

Phase transitions in virology

Phylogeography and molecular evolution of potato virus Y.

artículo científico publicado en 2012

Plant virus evolution under strong drought conditions results in a transition from parasitism to mutualism

artículo científico

Population differentiation and selective constraints in Pelargonium line pattern virus

artículo científico publicado en 2010

Punctuated evolution caused by selection of rare beneficial mutations.

artículo científico

Quasispecies spatial models for RNA viruses with different replication modes and infection strategies

artículo científico publicado en 2011

RNA virus genetic robustness: possible causes and some consequences ⬇️

artículo científico publicado el 19 de julio de 2012

RNA viruses as complex adaptive systems

Repeated transfer of small RNA virus populations leading to balanced fitness with infrequent stochastic drift

artículo científico publicado en 1996

Replication mode and landscape topology differentially affect RNA virus mutational load and robustness

artículo científico publicado en 2009

Response: Mechanisms of Punctuated Evolution

artículo científico publicado en 1996

Restrictions to RNA virus adaptation: an experimental approach

artículo científico publicado en 2002

Reverse-engineering the Arabidopsis thaliana transcriptional network under changing environmental conditions

artículo científico publicado en 2009

Robust dynamical pattern formation from a multifunctional minimal genetic circuit

artículo científico publicado en 2010

Role of host genetic diversity for susceptibility-to-infection in the evolution of virulence of a plant virus

artículo científico publicado en 2019

Simple genomes, complex interactions: epistasis in RNA virus

artículo científico publicado en 2010

Simple quasispecies models for the survival-of-the-flattest effect: The role of space

artículo científico publicado en 2007

Structural discrimination of robustness in transcriptional feedforward loops for pattern formation.

artículo científico publicado en 2011

Tempo and mode of plant RNA virus escape from RNA interference-mediated resistance

artículo científico publicado en 2011

Test of synergistic interactions among deleterious mutations in bacteria ⬇️

artículo científico publicado el 27 de noviembre de 1997

The Core/E1 domain of hepatitis C virus genotype 4a in Egypt does not contain viral mutations or strains specific for hepatocellular carcinoma

artículo científico publicado en 2011

The causes of epistasis

artículo científico publicado en 2011

The causes of epistasis in genetic networks

artículo científico publicado en 2011

The contribution of epistasis to the architecture of fitness in an RNA virus

scholarly article

The distribution of fitness effects caused by single-nucleotide substitutions in an RNA virus

artículo científico publicado en 2004

The effect of genetic robustness on evolvability in digital organisms

artículo científico publicado en 2008

The evolution of RNA viruses: A population genetics view

artículo científico publicado en 2000

The evolution of sex: empirical insights into the roles of epistasis and drift

artículo científico publicado en 2007

The evolutionary genetics of emerging plant RNA viruses

scientific article published on March 2011

The fittest versus the flattest: experimental confirmation of the quasispecies effect with subviral pathogens.

artículo científico publicado en 2006

The games plant viruses play

artículo científico publicado en 2014

The pleiotropic cost of host-specialization in Tobacco etch potyvirus

artículo científico publicado en 2008

The promiscuous evolutionary history of the family Bromoviridae

artículo científico publicado en 2008

The rate and spectrum of spontaneous mutations in a plant RNA virus

artículo científico publicado en 2010

The red queen reigns in the kingdom of RNA viruses

artículo científico publicado en 1994

The strands of both polarities of a small circular RNA from carnation self-cleave in vitro through alternative double- and single-hammerhead structures

artículo científico publicado en 1992

The two faces of mutation: extinction and adaptation in RNA viruses

artículo científico publicado en 2000

The utility of fitness landscapes and big data for predicting evolution

artículo científico publicado en 2018

Theoretical conditions for the coexistence of viral strains with differences in phenotypic traits: a bifurcation analysis

scientific article published on 09 January 2019

Time-Sampled Population Sequencing Reveals the Interplay of Selection and Genetic Drift in Experimental Evolution of Potato Virus Y.

artículo científico publicado en 2017

Towards an integrated molecular model of plant-virus interactions

artículo científico publicado en 2012

Transmission bottlenecks and the evolution of fitness in rapidly evolving RNA viruses

artículo científico publicado en 2001

Transmission modes affect the population structure of potato virus Y in potato

artículo científico publicado en 2020

Tridimensional model structure and patterns of molecular evolution of Pepino mosaic virus TGBp3 protein

artículo científico publicado en 2011

Ultradeep sequencing analysis of population dynamics of virus escape mutants in RNAi-mediated resistant plants

artículo científico publicado en 2012

Upper-limit mutation rate estimation for a plant RNA virus

artículo científico publicado en 2009

Viroids: an Ariadne's thread into the RNA labyrinth

artículo científico publicado en 2006

Virus Evolution: Insights from an Experimental Approach

scientific article published in 2007

Virus Infection Suppresses Nicotiana benthamiana Adaptive Phenotypic Plasticity ⬇️

artículo científico publicado el 17 de febrero de 2011

Virus adaptation by manipulation of host's gene expression

artículo científico publicado en 2008

Why are viral genomes so fragile? The bottleneck hypothesis

scientific article published in 2021

Within-host Evolution of Segments Ratio for the Tripartite Genome of Alfalfa Mosaic Virus

Within-host Evolution of Segments Ratio for the Tripartite Genome of Alfalfa Mosaic Virus.

artículo científico publicado en 2017

r- and K-selection in experimental populations of vesicular stomatitis virus

artículo científico publicado en 2002

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