Research & publications

The team’s scientific work.

Articles co-written by members of the team with their co-authors and research institutes. They ground the methods we apply in our projects.

Three articles to start with

One question. One approach. One result.

Brown trout · BMC Genomics, 2019

How can reproducible genotyping tools, spread across the genome, be built for brown trout?

12,204informative SNPs identified by RAD sequencing and positioned on the linkage map
192SNPs kept for a cost-effective array (96 × 2), spread along the map
1,862trout genotyped in five rivers, from the Atlantic and Mediterranean lineages
< 1%of loci not genotyped per individual, in every river

Read the summary Population genomics

From genome to array: 12,204 SNPs, 192 kept

12,204 SNP192 SNP

Source: Saint-Pé K et al. (2019), BMC Genomics.

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28 publications

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These publications ground our methods. Our R&D projects extend them, and our case studies put them to work in the field.

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The team’s scientific work.

One question. One approach. One result.

How can reproducible genotyping tools, spread across the genome, be built for brown trout?

All publications.

Switch from canonical to recombination-dependent DNA synthesis by M-CDK phosphorylation of DNA Polα

Water-borne cortisol is correlated with acclimatization temperature but not metabolic rate in a teleost fish

Quantitative genetics and GWAS reveal population-specific sex-ratio responses in wild European seabass (Dicentrarchus labrax) under various temperature scenarios

Larval survival in European seabass (Dicentrarchus labrax) is shaped by the natural thermal regime of their population of origin and the level of introgression of Atlantic and Mediterranean genomes

Evidence that tolerance of acute warming declines with increasing body mass within fish species

Chromosome-scale genome sequences of two Charadriiformes species: Scolopax rusticola and Lymnocryptes minimus

Reduced fitness associated with introgression within the Western Mediterranean admixed population of European seabass

Do European Seabass Larvae Grow Better in Their Natural Temperature Regime?

Genomic selection for individual feed efficiency in the European seabass: Response to selection on efficiency, commercial traits and sex

The Fate of a Polygenic Phenotype Within the Genomic Landscapes of Introgression in the European Seabass Hybrid Zone

Thermal modulation of energy allocation during sex determination in the European sea bass (Dicentrarchus labrax)

Post-larval exposure to warm temperature enhances female ratio, while starvation and photoperiod do not: The case of European seabass, Dicentrarchus labrax

Whole-genome sequencing identifies interferon-induced protein IFI6/IFI27-like as a strong candidate gene for VNN resistance in European sea bass

Genome-wide DNA methylation predicts environmentally driven life history variation in a marine fish

Redundancy analysis, genome-wide association studies and the pigmentation of brown trout (Salmo trutta L.)

Strong Parallel Differential Gene Expression Induced by Hatchery Rearing Weakly Associated with Methylation Signals in Adult Coho Salmon (O. kisutch)

Associative Overdominance and Negative Epistasis Shape Genome-Wide Ancestry Landscape in Supplemented Fish Populations

Identification of genomic regions affecting production traits in pigs divergently selected for feed efficiency

Epigenomic modifications induced by hatchery rearing persist in germ line cells of adult salmon after their oceanic migration

Using Haplotype Information for Conservation Genomics

Adaptive and maladaptive genetic diversity in small populations: Insights from the Brook Charr (Salvelinus fontinalis) case study

The impact of training on data from genetically-related lines on the accuracy of genomic predictions for feed efficiency traits in pigs

The role of recombination on genome-wide patterns of local ancestry exemplified by supplemented brook charr populations

Development of a large SNPs resource and a low-density SNP array for brown trout (Salmo trutta) population genetics

Genomic consequences of a recent three-way admixture in supplemented wild brown trout populations revealed by local ancestry tracts

Ancestry and adaptive evolution of anadromous, resident, and adfluvial rainbow trout (Oncorhynchus mykiss) in the San Francisco bay area: application of adaptive genomic variation to conservation in a highly impacted landscape

A Dense Brown Trout (Salmo trutta) Linkage Map Reveals Recent Chromosomal Rearrangements in the Salmo Genus and the Impact of Selection on Linked Neutral Diversity

Genome-wide nucleotide diversity of hatchery-reared Atlantic and Mediterranean strains of brown trout Salmo trutta compared to wild Mediterranean populations

From research to the field.

Your question. Our next starting point.