J. Y. Dutheil

Experimental evaluation of a direct fitness effect of the de novo evolved mouse gene Pldi

The paper tests the fitness effect of a de novo evolved mouse gene by comparing knockout and wildtype strains in a reproductive competition experiment.

When is gene expression noise advantageous?

This study shows gene expression noise can be advantageous in fluctuating environments and is influenced by gene network position during evolution.

On the estimation of genome-average recombination rates

This study compares methods for estimating genome-average recombination rates, finding that SMC approaches are accurate with single genomes but sensitive to gene conversion, while heterozygosity correlation methods are less affected by population size changes.

Large-scale analyses reveal the contribution of adaptive evolution in pathogenic and non-pathogenic fungal species

This study analyzes 2,478 fungal genomes to compare adaptive evolution rates across 20 species, finding that high adaptation rates are not exclusive to pathogens.

Evidence for adaptive evolution towards high magnetic sensitivity of potential magnetoreceptor in songbirds

The paper investigates Cry4's role as a magnetoreceptor in migratory songbirds, showing strong positive selection and variability, and identifies its loss in certain bird groups.

The rate of adaptive molecular evolution in wild and domesticated Saccharomyces cerevisiae populations

This study compares adaptive molecular evolution rates in wild and domesticated Saccharomyces cerevisiae populations, finding higher adaptive evolution rates in wild populations.

Being noisy in a crowd: differential selective pressure on gene expression noise in model gene regulatory networks

The paper simulates evolution of gene-specific expression noise in gene regulatory networks, finding that central genes experience stronger selective pressure to reduce noise.

The structural determinants of intra-protein compensatory substitutions

The paper identifies structural determinants of compensatory substitutions in bacterial proteins using phylogenetic analysis and structural data, showing coevolving residues are often in the core and in contact.

The landscape of nucleotide diversity in Drosophila melanogaster is shaped by mutation rate variation

The paper develops a statistical method to jointly infer genealogies, recombination rates, and mutation rates in Drosophila melanogaster, finding that mutation rate variation is the major driver of genome-wide diversity.

Testing the adaptive walk model of gene evolution

The paper tests the adaptive walk model of gene evolution by analyzing population genomic data from Arabidopsis and Drosophila, finding that younger genes have higher molecular adaptation rates and larger physicochemical substitution effects.

The insertion of a mitochondrial selfish element into the nuclear genome and its consequences

The paper describes the accidental integration of a mitochondrial homing endonuclease into the nuclear genome of Ustilago maydis, resulting in a non-functional gene and a truncated helicase gene.

The genomic determinants of adaptive evolution in a fungal pathogen

This study identifies genomic determinants of adaptive evolution in the fungal pathogen Zymoseptoria tritici by analyzing selection patterns and recombination rates across its genome.

Comparison of fine-scale recombination maps in fungal plant pathogens reveals dynamic recombination landscapes and intragenic hotspots

This study compares recombination maps in two fungal plant pathogens, finding conserved large-scale patterns but divergent small-scale hotspots, suggesting dynamic recombination landscapes contributing to rapid evolution.

Selection at the pathway level drives the evolution of gene-specific transcriptional noise

The paper analyzes transcriptional noise in mouse genes using single-cell transcriptomics data to show that pathway position, not just gene properties, drives evolutionary selection on noise levels.