S. F. Elena

Experimental evolution of an RNA virus in Caenorhabditis elegans

This study evolves two Orsay virus strains in C. elegans, finding slight infectivity changes, non-synonymous mutations, and non-random distribution of minor variants in polymorphic regions.

Adaptation of turnip mosaic virus to Arabidopsis thaliana involves rewiring of VPg - host proteome interactions

The paper investigates how mutations in TuMV's VPg protein affect its interactions with host proteins in Arabidopsis thaliana, revealing their impact on viral adaptation and plant tolerance.

Accumulation dynamics of defective genomes during experimental evolution of two betacoronaviruses

This study tracks defective viral genome (DVG) dynamics in two betacoronaviruses under different MOI conditions, showing increased diversity and abundance with specific deletion patterns.

Cell type-specific adaptation of the SARS-CoV-2 spike

This study shows how SARS-CoV-2 spike protein adapts to different human cell types through mutations that affect entry efficiency and receptor affinity.

An efficient plasmid-based system for the recovery of recombinant vesicular stomatitis virus encoding foreign glycoproteins

This paper describes an efficient plasmid-based system for producing recombinant VSV encoding foreign glycoproteins, validated with glycoproteins from multiple viral families.

Within-host virus spreading and tolerance to infection are key factors of the Arabidopsis thaliana age-dependent susceptibility to viral infections

This study investigates age-dependent susceptibility to viral infections in Arabidopsis thaliana, finding that later stages show increased viral spread but also greater fertility, suggesting a trade-off between susceptibility and fitness.

Unveiling the Hidden Viromes Across the Animal Tree of Life: Insights from a Taxonomic Classification Pipeline Applied to Invertebrates of 31 Metazoan Phyla

This study analyzes viromes across 31 invertebrate phyla using RNA-Seq data to estimate virome composition, quantify diversity, and assess host and habitat influences on virome structure.

Orsay virus infection increases Caenorhabditis elegans resistance to heat-shock

This study shows that Orsay virus infection increases Caenorhabditis elegans resistance to heat shock through upregulation of argonaute proteins, suggesting a mutualistic relationship under thermal stress.

How do plant RNA viruses overcome the negative effect of Muller s ratchet despite strong transmission bottlenecks?

This study investigates how plant RNA viruses counteract Muller's ratchet by analyzing fitness outcomes under different bottleneck sizes and population dynamics in tobacco etch virus.

Evidence for gene transfer between mycoviruses and their host: Curvulaviridae as a case study

The paper investigates gene transfer between mycoviruses and their fungal hosts, focusing on the Curvulaviridae family, and finds evidence of host protein transfer to viral genomes.

Phenotypic and genomic changes during Turnip mosaic virus adaptation to Arabidopsis thaliana mutants lacking epigenetic regulatory factors

This study shows RNA viruses adapt to epigenetic plant defenses by increasing infectivity, virulence, and viral load, with adaptation primarily targeting the VPg protein.

Effect of disease prevalence and growth stage on symptoms severity in the Turnip mosaic virus - Arabidopsis thaliana pathosystem

The paper investigates how disease prevalence and plant growth stage affect symptom severity in Arabidopsis thaliana infected with Turnip mosaic virus, finding that young plants are more responsive to VOC-mediated protection and high prevalence slows disease progression.

Host age-dependent evolution of a plant RNA virus

This study investigates how host age affects virus evolution in plants, finding that older hosts lead to faster and more severe infections, with genomic changes varying by host age and viral isolate.

Exploring the miRNA-mediated response to combined stresses in melon plants

This study identifies miRNA families responding to combined stresses in melon plants and shows that their response is often non-additive compared to individual stresses.

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

This study shows that innate immune pathways in Drosophila constrain RNA virus evolution by reducing genetic diversity and virulence when disrupted.

Why are viral genomes so fragile? The bottleneck hypothesis

The paper provides theoretical evidence that viral genome fragility evolves due to population bottlenecks, showing it can increase survival through bottlenecks and attack rates in certain conditions.

Arabidopsis thaliana genes contributing to differences in the outcome of infection with generalist and specialist strains of Turnip mosaic virus identified by genome-wide association studies

This study identifies Arabidopsis thaliana genes associated with infection outcomes by generalist and specialist Turnip mosaic virus strains using GWAS.

Defects in plant immunity modulate the rates and patterns of RNA virus evolution

This study shows that host immunity differences affect RNA virus evolution rates and patterns, with resistant hosts driving faster adaptation and permissive hosts selecting for specialist viruses.

Increasing growth temperature alters the within-host competition of viral strains and influences virus genetic variation

This study shows that temperature affects virus-virus interactions and genetic variation in mixed viral infections in tomato plants.

Revisiting Orthotospovirus Phylogeny Using Whole Genomic Data and a Hypothesis for their Geographic Origin and Diversification

This study uses complete genomic data from 20 Orthotospovirus species to revise their phylogeny, identify four phylogroups, and estimate divergence times and geographic origin.

Viral fitness determines the magnitude of transcriptomic and epigenomic reprogramming of defense responses in plants

The paper investigates how viral adaptation affects transcriptomic and epigenomic changes in Arabidopsis thaliana during antiviral responses, finding that DNA methylation and histone modifications play a role in defense.

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

This study shows that host genetic diversity influences the evolution of virulence in Turnip mosaic virus, with more pathogenic viruses evolving in genetically heterogeneous host populations.

Parsimonious scenario for the emergence of viroid-like replicons de novo

The paper evaluates the plausibility of de novo emergence of viroid-like replicons through a theoretical analysis of RNA structure evolution and functional module acquisition.

Engineered Genetic Redundancy Relaxes Selective Constraints upon Endogenous Genes in Viral RNA Genomes

This study shows that engineered genetic redundancy in viral RNA genomes reduces the negative impact of deleterious mutations on fitness and virulence.

Exploring the role of cellular homologous of the 30K-superfamily of plant virus movement proteins

The paper investigates the functional role of a plant virus movement protein homolog in Arabidopsis thaliana, showing its impact on development, salinity stress, and viral infectivity.

Diminishing returns of inoculum size on the rate of a plant RNA virus evolution

The paper tests if increasing inoculum size reduces evolutionary rate in a plant RNA virus, finding mixed results across fitness traits.

Spatially-induced nestedness in a neutral model of phage-bacteria networks

The paper shows that spatially-constrained coevolution of phage-bacteria networks leads to nestedness, an emergent property promoting diversity.