Consulta: creatorFacets:"Le Luyer, Jeremy"
Registros recuperados: 13
Data/hora: 16/06/2024 03:19:21

Domestication and Temperature Modulate Gene Expression Signatures and Growth in the Australasian Snapper     Chrysophrys auratus
Provedor de dados: 5
Autores: Wellenreuther, Maren; Le Luyer, Jeremy; Cook, Denham; Ritchie, Peter A.; Bernatchez, Louis.
Identifying genes and pathways involved in domestication is critical to understand how species change in response to human-induced selection pressures, such as increased temperatures. Given the profound influence of temperature on fish metabolism and organismal performance, a comparison of how temperature affects wild and domestic strains of snapper is an important question to address. We experimentally manipulated temperature conditions for F1-hatchery and wild Australasian snapper (Chrysophrys auratus) for 18 days to mimic seasonal extremes and measured differences in growth, white muscle RNA transcription and hematological parameters. Over 2.2 Gb paired-end reads were assembled de novo for a total set of 33,017 transcripts (N50 = 2,804). We found...
Tipo: Text
Palavras-chave: Domestication; Temperature; Transcriptomics; Growth; Sparidae.
Ano: 2019
URL: https://archimer.ifremer.fr/doc/00476/58788/61321.pdf

Parallel epigenetic modifications induced by hatchery rearing in a Pacific Salmon
Provedor de dados: 5
Autores: Le Luyer, Jeremy; Laporte, Martin; Beacham, Terry D.; Kaukinen, Karia H.; Withler, Ruth E.; Leong, Jong S.; Rondeau, Eric B.; Koop, Ben F.; Bernatchez, Louis.
A puzzling question in conservation biology is how to maintain overall fitness of individuals  bred in captive environment upon release into the wild, especially for rehabilitating declining or threatened species [1,2]. For salmonid species, a heritable change in fitness related traits and gene expression has been reported to occur in a single generation of captivity in hatchery environment [3–5]. Such rapid changes are congruent with models of  inadvertent domestication selection which may lead to maladaptation in the natural environment [4]. Arguably, the underlying mechanism by which captivity may induce  fitness difference between wild and captive congeners is still poorly understood. Short- term selection on complex phenotypic traits is expected to...
Tipo: Text
Palavras-chave: Epigenetics; Methylation; Coho salmon; Hatchery; RAD sequencing.
Ano: 2017
URL: http://archimer.ifremer.fr/doc/00409/52050/52722.pdf

Genomics and telemetry suggest a role for migration harshness in determining overwintering habitat choice, but not gene flow, in anadromous Arctic Char
Provedor de dados: 5
Autores: Moore, Jean-sebastien; Harris, Les N.; Le Luyer, Jeremy; Sutherland, Ben J. G.; Rougemont, Quentin; Tallman, Ross F.; Fisk, Aaron T.; Bernatchez, Louis.
Migration is a ubiquitous life history trait with profound evolutionary and ecological consequences. Recent developments in telemetry and genomics, when combined, can bring significant insights on the migratory ecology of non-model organisms in the wild. Here, we used this integrative approach to document dispersal, gene flow and potential for local adaptation in anadromous Arctic Char from six rivers in the Canadian Arctic. Acoustic telemetry data from 124 tracked individuals indicated asymmetric dispersal, with a large proportion of fish (72%) tagged in three different rivers migrating up the same short river in the fall. Population genomics data from 6,136 SNP markers revealed weak, albeit significant, population differentiation (average pairwise FST =...
Tipo: Text
Palavras-chave: Arctic; Conservation; Fish migration; Fishery management; Genotyping by sequencing; Population genomics; RADseq.
Ano: 2017
URL: https://archimer.ifremer.fr/doc/00409/52049/52719.pdf

Whole transcriptome sequencing and biomineralization gene architecture associated with cultured pearl quality traits in the pearl oyster, Pinctada margaritifera
Provedor de dados: 5
Autores: Le Luyer, Jeremy; Auffret, Pauline; Quillien, Virgile; Leclerc, Nicolas; Reisser, Celine; Vidal-dupiol, Jeremie; Ky, Chin-long.
Background Cultured pearls are unique gems produced by living organisms, mainly molluscs of the  Pinctada genus, through the biomineralization properties of pearl sac tissue.  Improvement of P. margaritifera pearl quality is one of the biggest challenges that  Polynesian research has faced to date. To achieve this goal, a better understanding of the  complex mechanisms related to nacre and pearl formation is essential and can now be  approached through the use of massive parallel sequencing technologies. The aim of this  study was to use RNA-seq to compare whole transcriptome expression of pearl sacs that  had producing pearls with high and low quality. For this purpose, a comprehensive  reference transcriptome of P. margaritifera was built based on...
Tipo: Text
Palavras-chave: Pinctada margaritifera; Biomineralization; Pearl quality; Pearl sac; RNA-seq.
Ano: 2019
URL: https://archimer.ifremer.fr/doc/00475/58695/61207.pdf

Combining population genomics and forward simulations to investigate stocking impacts: A case study of Muskellunge (   Esox masquinongy   ) from the St. Lawrence River basin
Provedor de dados: 5
Autores: Rougemont, Quentin; Carrier, Anne; Le Luyer, Jeremy; Ferchaud, Anne-laure; Farrell, John M.; Hatin, Daniel; Brodeur, Philippe; Bernatchez, Louis.
Understanding the genetic and evolutionary impacts of stocking on wild fish populations has long been of interest as negative consequences such as reduced fitness and loss of genetic diversity are commonly reported outcomes. In an attempt to sustain a fishery, managers implemented nearly five decades of extensive stocking of over a million Muskellunge (Esox masquinongy), a native species in the Lower St. Lawrence River (Québec, Canada). We investigated the effect of this stocking on population genetic structure and allelic diversity in the St. Lawrence River in addition to tributaries and several stocked inland lakes. Using Genotype‐By‐Sequencing (GBS), we genotyped 643 individuals representing 22 locations and combined this information with forward...
Tipo: Text
Palavras-chave: Admixture; Esox masquinongy; Forward simulations; Gene flow; Genomic; Stocking.
Ano: 2019
URL: https://archimer.ifremer.fr/doc/00476/58791/61324.pdf

Microplastics induce dose-specific transcriptomic disruptions in energy metabolism and immunity of the pearl oyster Pinctada margaritifera
Provedor de dados: 5
Autores: Gardon, Tony; Morvan, Lucie; Huvet, Arnaud; Quillien, Virgile; Soyez, Claude; Le Moullac, Gilles; Le Luyer, Jeremy.
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 of polystyrene microbeads (micro-PS of 6 and 10 μm) at 0.25, 2.5, and 25 μg L−1, which demonstrated a dose-dependent decrease of energy balance in the pearl oyster Pinctada margaritifera, a transcriptomic study was conducted on mantle tissue. Transcriptomic data helped us to decipher the molecular mechanisms involved in P. margaritifera responses to micro-PS and search more broadly for effects on energetically expensive maintenance functions. Genes related to the detoxification process were impacted by long-term micro-PS exposure through a decrease in...
Tipo: Text
Palavras-chave: Microbeads; Marine bivalve; Differentially expressed genes; Stress response; Energy-limited tolerance.
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00640/75213/75351.pdf

Tracing key genes associated with the Pinctada margaritifera albino phenotype from juvenile to cultured pearl harvest stages using multiple whole transcriptome sequencing
Provedor de dados: 5
Autores: Auffret, Pauline; Le Luyer, Jeremy; Sham Koua, Manaarii; Quillien, Virgile; Ky, Chin-long.
Background Albino mutations are commonly observed in the animal kingdom, including in bivalves. In the black-lipped pearl oyster Pinctada margaritifera, albino specimens are characterized by total or partial absence of colouration resulting in typical white shell phenotype expression. The relationship of shell colour with resulting cultured pearl colour is of great economic interest in P. margaritifera, on which a pearl industry is based. Hence, the albino phenotype provides a useful way to examine the molecular mechanisms underlying pigmentation. Results Whole transcriptome RNA-sequencing analysis comparing albino and black wild-type phenotypes at three stages over the culture cycle of P. margaritifera revealed a total of 1606, 798 and 187 differentially...
Tipo: Text
Palavras-chave: Pinctada margaritifera; Albinism; Pigmentation; RNA-seq; Notch signaling pathway; Tyrosinase; Biomineralization.
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00652/76420/77477.pdf

Molecular mechanisms of acclimation to long‐term elevated temperature exposure in marine symbioses
Provedor de dados: 5
Autores: Alves Monteiro, H.j.; Brahmi, C.; Mayfield, A.b.; Vidal‐dupiol, J.; Lapeyre, B.; Le Luyer, Jeremy.
Seawater temperature rise in French Polynesia has repeatedly resulted in the bleaching of corals and giant clams. Because giant clams possess distinctive ectosymbiotic features, they represent a unique and powerful model for comparing molecular pathways involved in 1) maintenance of symbiosis and 2) acquisition of thermo‐tolerance among coral reef organisms. Herein, we explored the physiological and transcriptomic responses of the clam hosts and their photosynthetically active symbionts over a 65‐day experiment in which clams were exposed to either normal or environmentally relevant elevated seawater temperatures. Additionally, we used metabarcoding data coupled with in situ sampling/survey data to explore the relative importance of holobiont adaptation...
Tipo: Text
Palavras-chave: Co-expression network analysis; Giant clams; Metabarcoding; RNA-Seq; Symbiodiniaceae; Thermo-acclimation.
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00591/70271/68331.pdf

Epigenomic modifications induced by hatchery rearing persist in germ line cells of adult salmon after their oceanic migration
Provedor de dados: 5
Autores: Leitwein, Maeva; Laporte, Martin; Le Luyer, Jeremy; Mohns, Kayla; Normandeau, Eric; Withler, Ruth; Bernatchez, Louis.
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, human‐induced environmental variation may generate epigenomic variation potentially affecting fitness through phenotypic modifications. Major questions remain pertaining to how much epigenomic variation arises from environmental heterogeneity, whether this variation can persist throughout life, and whether it can be transmitted across generations. We performed whole genome bisulfite sequencing (WGBS) on the sperm of genetically indistinguishable hatchery and wild born migrating adults of Coho salmon (Oncorhynchus kisutch) from two...
Tipo: Text
Palavras-chave: Conservation; Developmental plasticity; Epigenomic; Fisheries; Fitness; Hatchery; Salmonid.
Ano: 2021
URL: https://archimer.ifremer.fr/doc/00688/79977/82923.pdf

DNA methylation reprogramming, TE derepression, and postzygotic isolation of nascent animal species
Provedor de dados: 5
Autores: Laporte, M.; Le Luyer, Jeremy; Rougeux, C.; Dion-côté, A.-m.; Krick, M.; Bernatchez, L.
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 and may have deleterious consequences when released. For these reasons, they are silenced by heterochromatin formation, which includes DNA methylation. Here, we show that a significant proportion of TEs are differentially methylated between the “dwarf” (limnetic) and the “normal” (benthic) whitefish, two nascent species that diverged some 15,000 generations ago within the Coregonus clupeaformis species complex. Moreover, TEs are overrepresented among loci that were demethylated in...
Tipo: Text
Ano: 2019
URL: https://archimer.ifremer.fr/doc/00586/69819/67709.pdf

Mapping of Adaptive Traits Enabled by a High-Density Linkage Map for Lake Trout
Provedor de dados: 5
Autores: Smith, Seth R.; Amish, Stephen J.; Bernatchez, Louis; Le Luyer, Jeremy; Wilson, Chris; Boeberitz, Olivia; Luikart, Gordon; Scribner, Kim T.
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 the genetic basis for adaptive variation because they express a striking degree of ecophenotypic variation across their range; however, necessary genomic resources are lacking. Here we utilize recently-developed analytical methods and sequencing technologies to (1) construct a high-density linkage and centromere map for lake trout, (2) identify loci underlying variation in traits that differentiate lake trout ecophenotypes and populations, (3) determine the location of the lake trout sex determination locus, and (4) identify chromosomal...
Tipo: Text
Palavras-chave: Linkage map; Salvelinus; QTL; RAD; Genomics; Lake trout.
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00634/74659/74565.pdf

The Epigenetics Dilemma
Provedor de dados: 5
Autores: Grunau, Christoph; Le Luyer, Jeremy; Laporte, Martin; Joly, Dominique.
Tipo: Text
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00599/71139/69454.pdf

Assessing the effects of genotype-by-environment interaction on epigenetic, transcriptomic, and phenotypic response in a Pacific salmon
Provedor de dados: 5
Autores: Christensen, Kris A; Le Luyer, Jeremy; Chan, Michelle T T; Rondeau, Eric B; Koop, Ben F; Bernatchez, Louis; Devlin, Robert H.
Genotype-by-environment (GxE) interactions are non-parallel reaction norms among individuals with different genotypes in response to different environmental conditions. GxE interactions are an extension of phenotypic plasticity and consequently studying such interactions improves our ability to predict effects of different environments on phenotype as well as the fitness of genetically distinct organisms and their capacity to interact with ecosystems. Growth hormone transgenic coho salmon grow much faster than non-transgenics when raised in tank environments, but show little difference in growth when reared in nature-like streams. We used this model system to evaluate potential mechanisms underlying this growth rate GxE interaction, performing RNA-seq to...
Tipo: Text
Palavras-chave: Epigenetics; Transcriptome; GxE; Transgenic; Growth hormone; Salmonid.
Ano: 2021
URL: https://archimer.ifremer.fr/doc/00677/78890/81188.pdf