Significance Captive rearing is known to impact the fitness of individuals released in wild, but relative role genetic vs. nongenetic underlying processes still debated. We measured genome-wide methylation profiles document epigenetic differences between Pacific salmon originating from a hatchery and their natural-born congeners two geographically distant rivers. Our results provide evidence that modifications induced by potential explanatory mechanism for reduced hatchery-reared once wild.

A combined approach integrating bioenergetics and major biological activities is essential to properly understand the impact of microplastics (MP) on marine organisms. Following experimental exposure polystyrene microbeads (micro-PS 6 10 μm) at 0.25, 2.5, 25 μg L-1, which demonstrated a dose-dependent decrease energy balance in pearl oyster Pinctada margaritifera, transcriptomic study was conducted mantle tissue. Transcriptomic data helped us decipher molecular mechanisms involved P....

Migration is a ubiquitous life history trait with profound evolutionary and ecological consequences. Recent developments in telemetry genomics, when combined, can bring significant insights on the migratory ecology of nonmodel organisms wild. Here, we used this integrative approach to document dispersal, gene flow potential for local adaptation anadromous Arctic Char from six rivers Canadian Arctic. Acoustic data 124 tracked individuals indicated asymmetric large proportion fish (72%) tagged...

The genomic shock hypothesis stipulates that the stress associated with divergent genome admixture can cause transposable element (TE) derepression, which could act as a postzygotic isolation mechanism. TEs affect gene structure, expression patterns, and chromosome organization may have deleterious consequences when released. For these reasons, they are silenced by heterochromatin formation, includes DNA methylation. Here, we show significant proportion of differentially methylated between...

Pearl-farming is the second most important source of income in French Polynesia. However, tropical lagoons are fragile ecosystems with regard to anthropogenic pressures like plastic pollution, which threaten marine life and pearl oyster-related economy. Here, we investigated spatial distribution microplastics (MP) concentrations surface water (SW), column (WC) cultivated oyster (PO) from three pearl-farming atolls low population tourism. Microplastics were categorized by their size class,...

Abstract Human activities induce direct or indirect selection pressure on natural population and may ultimately affect population's integrity. While numerous conservation programs aimed to minimize human‐induced genomic variation, environmental variation generate epigenomic potentially affecting fitness through phenotypic modifications. Major questions remain pertaining how much arises from heterogeneity, whether this can persist throughout life, it be transmitted across generations. We...

Studies on the impact of ocean acidification marine organisms involve exposing to future scenarios, which has limited relevance for coastal calcifiers living in a mosaic habitats. Identification tipping points beyond detrimental effects are observed is widely generalizable proxy susceptibility at population level. This approach handful studies that focus only few macro-physiological traits, thus overlooking whole organism response. Here we develop framework analyze broad and molecular...

Abstract Using massively parallel sequencing data from two species with different life history traits, American lobster ( Homarus americanus ) and Arctic Char Salvelinus alpinus ), we highlight how an unbalanced sex ratio in the samples a few sex‐linked markers may lead to false interpretations of population structure thus potentially erroneous management recommendations. Here, multivariate analyses revealed genetic clusters separating by instead expected spatial variation: inshore offshore...

In fisheries management, intensive stocking programs are commonly used to enhance population abundance and maintain stock productivity. However, such practices increasingly raising concerns as multiple studies documented adverse genetic evolutionary impacts of on wild populations. Improvement management relies a better understanding the dynamic introgressive hybridization between domestic assessment state populations after cessation. Québec, Canada, over five million captive-reared Brook Charr (

Abstract Identifying the molecular mechanisms involved in rapid adaptation to novel environments and determining their predictability are central questions evolutionary biology pressing issues due global changes. Complementary genetic responses selection, faster epigenetic variations such as modifications of DNA methylation may play a substantial role adaptation. In context rampant urbanization, joint examinations genomic epigenomic still lacking. Here, we investigated (SNP) (CpG...

Abstract Using massively parallel sequencing data from two species with different life history traits -- American lobster ( Homarus americanus ) and Arctic Char Salvelinus alpinus we highlighted how an unbalanced sex ratio in the samples combined a few sex-linked markers may lead to false interpretations of population structure thus potentially erroneous management recommendations. Multivariate analyses revealed genetic clusters that separated males females instead showing expected pattern...

Abstract Identifying genes and pathways involved in domestication is critical to understand how species change response human-induced selection pressures, such as increased temperatures. Given the profound influence of temperature on fish metabolism organismal performance, a comparison affects wild domestic strains snapper an important question address. We experimentally manipulated conditions for F1-hatchery Australasian (Chrysophrys auratus) 18 days mimic seasonal extremes measured...

Pearl farming is crucial for the economy of French Polynesia. However, rearing structures contribute significantly to plastic waste, and widespread contamination pearl lagoons by microplastics has raised concerns about risks industry. This study aimed evaluate effects micro-nanoplastics (MNPs, 0.4–200 μm) on oyster (Pinctada margaritifera) over a 5-month production cycle closely mimicking ecological scenarios. MNPs were produced from weathered gear tested at environmentally relevant...

In holobiont, microbiota is known to play a central role on the health and immunity of its host. Then, understanding microbiota, dynamic according environmental conditions link would help react potential dysbiosis aquacultured species. While gut highly studied, in marine invertebrates hemolymph often set aside even if it remains an important actor homeostasis. Indeed, harbors factors involved animal homeostasis that interacts with immunity. Southwest Pacific, high economical valued shrimp...

Ectotherm's vulnerability to climate change is predicted increase with temperature variation. Still, translating laboratory observations of organisms’ heat-stress responses the natural fluctuating environment remains challenging. In this study, we used an integrative framework combining insights from Thermal Death Time (TDT) curves and physiological reaction norms, precisely capture Pinctada margaritifera’s thermal performance tolerance landsape. We then applied model predict individuals’...

Ocean acidification occurs at a rate unprecedented for millions of years, forcing sessile organisms, such as oysters, to respond in the short term by relying on their phenotypic plasticity. Phenotypic plasticity has limits, tipping points, beyond which species will have adapt or disappear. These limits could be related adaptation different habitat variabilities. Here we expose juvenile pearl Pinctada margaritifera, broad range pH and determine response gross physiological, lipidome...

Cultured pearls are unique gems produced by living organisms, mainly molluscs of the Pinctada genus, through biomineralization properties pearl sac tissue. Improvement P. margaritifera quality is one biggest challenges that Polynesian research has faced to date. To achieve this goal, a better understanding complex mechanisms related nacre and formation essential can now be approached use massive parallel sequencing technologies. The aim study was RNA-seq compare whole transcriptome...

Genotype-by-environment (GxE) interactions are non-parallel reaction norms among individuals with different genotypes in response to environmental conditions. GxE an extension of phenotypic plasticity and consequently studying such improves our ability predict effects environments on phenotype as well the fitness genetically distinct organisms their capacity interact ecosystems. Growth hormone transgenic coho salmon grow much faster than non-transgenics when raised tank environments, but...

Understanding the genetic and evolutionary impacts of stocking on wild fish populations has long been interest as negative consequences such reduced fitness loss diversity are commonly reported outcomes. In an attempt to sustain a fishery, managers implemented nearly five decades extensive over million Muskellunge (Esox masquinongy), native species in Lower St. Lawrence River (Québec, Canada). We investigated effect this population structure allelic addition tributaries several stocked...

Abstract Human activities and resource exploitation led to a massive decline of wild salmonid populations, consequently, numerous conservation programs have been developed supplement populations. However, many studies documented reduced fitness hatchery-born relative fish. Here, by using both RNA sequencing Whole Genome Bisulfite Sequencing hatchery wild-born adult Coho salmon (Oncorhynchus kisutch) originating from two previously studied river systems, we show that early-life...

Extended phosphorus (P) deficiency has been linked to an increase of skeletal deformities in farmed salmonids. To date, X-ray examination still is the most practical way detect abnormalities that are not externally visible. The aim this study was develop a standardized method based on empirical measurements provides early radiograph-based detection deformities. Triploid all-female rainbow trout (60.8 ± 1.6 g) were fed with (P)-deficient and P-sufficient diets (total P = 0.5% 0.92%,...

Abstract Islands are generally colonized by few individuals which could lead to a founder effect causing loss of genetic diversity and rapid divergence strong drift. Insular conditions can also induce new selective pressures on populations. Here, we investigated the extent differentiation within white‐tailed deer ( Odocoileus virginianus ) population introduced an island its with source mainland population. In response their novel environmental conditions, changed phenotypically from...

Understanding the genomic basis of adaptative intraspecific phenotypic variation is a central goal in conservation genetics and evolutionary biology. Lake trout (Salvelinus namaycush) are an excellent species for addressing genetic adaptive because they express striking degree ecophenotypic across their range; however, necessary resources lacking. Here we utilize recently-developed analytical methods sequencing technologies to (1) construct high-density linkage centromere map lake trout, (2)...