Olivier Bouchez

Late lactation represents the main window for sow-to-piglet transmission of persistent gut strains

Long-read 16S-ITS-23S tracking in 17 sow-piglet families shows maternal putative-strain sharing peaks in late lactation, which supplies most maternally derived strains persisting post-weaning.

A new genome assembly of the pea cultivar Cameor provides resources for functional genomics and genetics

The paper presents an improved pea genome assembly using long-read sequencing and other techniques, resulting in a highly contiguous and complete genome resource.

Host genetics and pre-vaccination blood transcriptome as determinants of vaccine-induced immunity to Influenza A virus in swine

This study identifies genetic loci and pre-vaccination transcriptomic signatures associated with immune response persistence to an Influenza A vaccine in pigs.

Sequence-based genome-wide association studies reveal the polygenic architecture of Varroa destructor resistance in Western honey bees Apis mellifera

This study performs genome-wide association analysis on honey bee colonies to identify genetic markers linked to Varroa destructor resistance, revealing a polygenic architecture and supporting genomic selection strategies.

metagWGS, a comprehensive workflow to analyze metagenomic data using Illumina or PacBio HiFi reads

metagWGS is a workflow for metagenomic analysis using short or long reads, producing high-quality genome bins and comprehensive annotations.

Divergent selection for feed efficiency in pigs altered the duodenum transcriptome and DNA methylation profiles, resulting in greater responses to feed intake in the most efficient line

Comparative genome analysis of Enterococcus cecorum reveals intercontinental spread of a lineage of clinical poultry isolates.

The paper analyzes the genomes of Enterococcus cecorum isolates to identify genetic features associated with clinical disease and track their spread.

Complex population structure and haplotype patterns in Western Europe honey bee from sequencing a large panel of haploid drones

The paper analyzes genetic structure in Western European honey bees using SNP data from 870 drones, identifying nine genetic backgrounds and large haplotype blocks.

Whole-genome sequencing identifies interferon induced protein IFI6 as a strong candidate gene for VNN resistance in European sea bass

An ancient truncated duplication of the anti-Mullerian hormone receptor type 2 gene is a potential conserved master sex determinant in the Pangasiidae catfish family

The paper identifies a truncated duplication of the amhr2 gene on the Y chromosome in Pangasiid catfishes as a conserved master sex-determining gene.

Genetic determinism of spontaneous masculinisation in XX female rainbow trout: new insights using medium throughput genotyping and whole-genome sequencing

The paper investigates the genetic basis of spontaneous masculinization in XX female rainbow trout using GWAS and WGS, identifying candidate genes associated with maleness.

Transcription-associated topoisomerase activities control DNA-breaks production by G-quadruplex ligands

The paper identifies TOP2A as a key effector of cytotoxicity from G4 ligands and shows its role in DNA break production during transcription.

Genome sequence of the euryhaline Javafish medaka, Oryzias javanicus: a small aquarium fish model for studies on adaptation to salinity.

The paper presents a high-quality draft genome assembly of Oryzias javanicus, focusing on its adaptation to salinity.

Characterization of a Y-specific duplication/insertion of the anti-Mullerian hormone type II receptor gene based on a chromosome-scale genome assembly of yellow perch, Perca flavescens

The paper presents a chromosome-scale genome assembly of yellow perch and identifies a Y-specific duplication of the amhr2 gene as a candidate sex determination gene.

RH mapping by sequencing: chromosome-scale assembly of the duck genome

The paper describes a method to order and orient sequence scaffolds into chromosome-scale assemblies using RH mapping and sequencing in ducks.

A high-quality grapevine downy mildew genome assembly reveals rapidly evolving and lineage-specific putative host adaptation genes

The paper presents a high-quality genome assembly of Plasmopara viticola, identifying genes under positive selection that may contribute to host adaptation.