Environment-driven reprogramming of gamete DNA methylation occurs during maturation and is transmitted intergenerationally in Atlantic Salmon

Assessing the effects of genotype-by-environment interaction on epigenetic, transcriptomic, and phenotypic response in a Pacific salmon

(2021) Kris A Christensen et al.   G3-Genes Genomes Genetics

Epigenetic inheritance and reproductive mode in plants and animals

(2021) Dafni Anastasiadi et al.   TRENDS IN ECOLOGY & EVOLUTION

Small RNAs in the Transgenerational Inheritance of Epigenetic Information

(2020) Lea Duempelmann et al.   TRENDS IN GENETICS

Major gene expression changes and epigenetic remodelling in Nile tilapia muscle after just one generation of domestication

(2020) Ioannis Konstantinidis et al.   Epigenetics

Environmental enrichment induces intergenerational behavioural and epigenetic effects on fish

(2020) Waldir M. Berbel‐Filho et al.   MOLECULAR ECOLOGY

Two different epigenetic information channels in wild three-spined sticklebacks are involved in salinity adaptation

(2020) Melanie J. Heckwolf et al.   Science Advances

Rearing environment affects the genetic architecture and plasticity of DNA methylation in Chinook salmon

(2020) Clare J. Venney et al.   HEREDITY

Comparison of anadromous and landlocked Atlantic salmon genomes reveals signatures of parallel and relaxed selection across the Northern Hemisphere

(2020) Erik Kjærner‐Semb et al.   Evolutionary Applications

The structural variation landscape in 492 Atlantic salmon genomes

(2020) Alicia C. Bertolotti et al.   Nature Communications

Importance of Experimental Environmental Conditions in Estimating Risks and Associated Uncertainty of Transgenic Fish Prior to Entry into Nature

(2019) Wendy E. Vandersteen et al.   Scientific Reports

Sex-Specific Co-expression Networks and Sex-Biased Gene Expression in the Salmonid Brook Charr Salvelinus fontinalis

(2019) Ben J. G. Sutherland et al.   G3-Genes Genomes Genetics

An extensive common-garden study with domesticated and wild Atlantic salmon in the wild reveals impact on smolt production and shifts in fitness traits

(2019) Øystein Skaala et al.   Evolutionary Applications

DNA methylation dynamics during epigenetic reprogramming of medaka embryo

(2019) Xuegeng Wang et al.   Epigenetics

An improved genetic sex test for Atlantic salmon (Salmo salar L.)

(2019) R. Andrew King et al.   Conservation Genetics Resources

Temporal Dynamics of DNA Methylation Patterns in Response to Rearing Juvenile Steelhead (Oncorhynchus mykiss) in a Hatchery versus Simulated Stream Environment

(2019) Mackenzie R. Gavery et al.   Genes

An Integrative Framework for Understanding the Mechanisms and Multigenerational Consequences of Transgenerational Plasticity

(2019) Alison M. Bell et al.   Annual Review of Ecology Evolution and Systematics

DNA Methylation Changes in the Sperm of Captive-Reared Fish: A Route to Epigenetic Introgression in Wild Populations

(2019) Deiene Rodriguez Barreto et al.   MOLECULAR BIOLOGY AND EVOLUTION

Epimutations in developmental genes underlie the onset of domestication in farmed European sea bass

(2019) Dafni Anastasiadi et al.   MOLECULAR BIOLOGY AND EVOLUTION

Advances in epigenetics link genetics to the environment and disease

(2019) Giacomo Cavalli et al.   NATURE

Retention of paternal DNA methylome in the developing zebrafish germline

(2019) Ksenia Skvortsova et al.   Nature Communications

Zebrafish preserve global germline DNA methylation while sex-linked rDNA is amplified and demethylated during feminisation

(2019) Oscar Ortega-Recalde et al.   Nature Communications

Stress, novel sex genes, and epigenetic reprogramming orchestrate socially controlled sex change

(2019) Erica V. Todd et al.   Science Advances

Polygenic selection drives the evolution of convergent transcriptomic landscapes across continents within a Nearctic sister species complex

(2019) Clément Rougeux et al.   MOLECULAR ECOLOGY

Glutamate receptors in domestication and modern human evolution

(2019) Thomas O’Rourke et al.   NEUROSCIENCE AND BIOBEHAVIORAL REVIEWS

OUP accepted manuscript

(2018)   BIOINFORMATICS

IGF1 receptor signaling pathways

(2018) Fumihiko Hakuno et al.   JOURNAL OF MOLECULAR ENDOCRINOLOGY

Biallelic loss of human CTNNA2, encoding αN-catenin, leads to ARP2/3 complex overactivity and disordered cortical neuronal migration

(2018) Ashleigh E. Schaffer et al.   NATURE GENETICS

Increased natural reproduction and genetic diversity one generation after cessation of a steelhead trout (Oncorhynchus mykiss) conservation hatchery program

(2018) Barry A. Berejikian et al.   PLoS One

The epigenetic landscape of transgenerational acclimation to ocean warming

(2018) Taewoo Ryu et al.   Nature Climate Change

A critical view on transgenerational epigenetic inheritance in humans

(2018) Bernhard Horsthemke   Nature Communications

Functions and mechanisms of epigenetic inheritance in animals

(2018) Ksenia Skvortsova et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Characterization of Genetic and Epigenetic Variation in Sperm and Red Blood Cells from Adult Hatchery and Natural-Origin Steelhead, Oncorhynchus mykiss

(2018) Mackenzie R. Gavery et al.   G3-Genes Genomes Genetics

Genome-Wide DNA Methylation Profiling Reveals Epigenetic Adaptation of Stickleback to Marine and Freshwater Conditions

(2017) Artem V. Artemov et al.   MOLECULAR BIOLOGY AND EVOLUTION

Parallel epigenetic modifications induced by hatchery rearing in a Pacific salmon

(2017) Jérémy Le Luyer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Persistent and plastic effects of temperature on DNA methylation across the genome of threespine stickleback ( Gasterosteus aculeatus )

(2017) David C. H. Metzger et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Detection vs. selection: integration of genetic, epigenetic and environmental cues in fluctuating environments

(2016) John M. McNamara et al.   ECOLOGY LETTERS

A genome scan for selection signatures comparing farmed Atlantic salmon with two wild populations: Testing colocalization among outlier markers, candidate genes, and quantitative trait loci for production traits

(2016) Lei Liu et al.   Evolutionary Applications

The Atlantic salmon genome provides insights into rediploidization

(2016) Sigbjørn Lien et al.   NATURE

A single generation of domestication heritably alters the expression of hundreds of genes

(2016) Mark R. Christie et al.   Nature Communications

Reliable Detection of Loci Responsible for Local Adaptation: Inference of a Null Model through Trimming the Distribution of FST

(2015) Michael C. Whitlock et al.   AMERICAN NATURALIST

Trace analysis of methylated and hydroxymethylated cytosines in DNA by isotope-dilution LC–MS/MS: first evidence of DNA methylation inCaenorhabditis elegans

(2015) Chiung-Wen Hu et al.   BIOCHEMICAL JOURNAL

An efficient and scalable analysis framework for variant extraction and refinement from population-scale DNA sequence data

(2015) Goo Jun et al.   GENOME RESEARCH

Detecting spatial genetic signatures of local adaptation in heterogeneous landscapes

(2015) Brenna R. Forester et al.   MOLECULAR ECOLOGY

Roll over Weismann: extracellular vesicles in the transgenerational transmission of environmental effects

(2015) Sally A Eaton et al.   Epigenomics

Tomosyn-2 is required for normal motor performance in mice and sustains neurotransmission at motor endplates

(2014) Cornelia J. Geerts et al.   Brain Structure & Function

Transgenerational Epigenetic Inheritance: Myths and Mechanisms

(2014) Edith Heard et al.   CELL

On the reproductive success of early-generation hatchery fish in the wild

(2014) Mark R. Christie et al.   Evolutionary Applications

Detecting genotypic changes associated with selective mortality at sea in Atlantic salmon: polygenic multilocus analysis surpasses genome scan

(2014) Vincent Bourret et al.   MOLECULAR ECOLOGY

A Bayesian hierarchical model to detect differentially methylated loci from single nucleotide resolution sequencing data

(2014) Hao Feng et al.   NUCLEIC ACIDS RESEARCH

Captive rearing for Chinook salmon (Oncorhynchus tshawytscha) and Atlantic salmon (Salmo salar): the Idaho and Maine experiences

(2014) Eric J. Stark et al.   REVIEWS IN FISH BIOLOGY AND FISHERIES

Drosophila genomic methylation: new evidence and new questions

(2014) Thomas L Dunwell et al.   Epigenomics

Accounting for cellular heterogeneity is critical in epigenome-wide association studies

(2014) Andrew E Jaffe et al.   GENOME BIOLOGY

Reprogramming the Maternal Zebrafish Genome after Fertilization to Match the Paternal Methylation Pattern

(2013) Magdalena E. Potok et al.   CELL

Sperm, but Not Oocyte, DNA Methylome Is Inherited by Zebrafish Early Embryos

(2013) Lan Jiang et al.   CELL

The GEF Bcr activates RhoA/MAL signaling to promote keratinocyte differentiation via desmoglein-1

(2013) Adi D. Dubash et al.   JOURNAL OF CELL BIOLOGY

Parental olfactory experience influences behavior and neural structure in subsequent generations

(2013) Brian G Dias et al.   NATURE NEUROSCIENCE

Epigenetic conservation at gene regulatory elements revealed by non-methylated DNA profiling in seven vertebrates

(2013) Hannah K Long et al.   eLife

Overview of the status of Atlantic salmon (Salmo salar) in the North Atlantic and trends in marine mortality

(2012) G. Chaput   ICES JOURNAL OF MARINE SCIENCE

Bis-SNP: Combined DNA methylation and SNP calling for Bisulfite-seq data

(2012) Yaping Liu et al.   GENOME BIOLOGY

Genetic adaptation to captivity can occur in a single generation

(2011) M. R. Christie et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

pegas: an R package for population genetics with an integrated-modular approach

(2010) E. Paradis   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

The Role of Liver-Derived Insulin-Like Growth Factor-I

(2009) Claes Ohlsson et al.   ENDOCRINE REVIEWS

COLONY: a program for parentage and sibship inference from multilocus genotype data

(2009) OWEN R. JONES et al.   Molecular Ecology Resources

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

SYNTHESIS: Fitness of hatchery-reared salmonids in the wild

(2008) Hitoshi Araki et al.   Evolutionary Applications

A Genome-Scan Method to Identify Selected Loci Appropriate for Both Dominant and Codominant Markers: A Bayesian Perspective

(2008) M. Foll et al.   GENETICS