Seascape genomics of eastern oyster (Crassostrea virginica ) along the Atlantic coast of Canada

Parallel evolution and adaptation to environmental factors in a marine flatfish: Implications for fisheries and aquaculture management of the turbot (Scophthalmus maximus )

(2018) Fernanda Dotti do Prado et al.   Evolutionary Applications

Asymmetric oceanographic processes mediate connectivity and population genetic structure, as revealed by RADseq, in a highly dispersive marine invertebrate (Parastichopus californicus )

(2018) Amanda Xuereb et al.   MOLECULAR ECOLOGY

Comparing methods for detecting multilocus adaptation with multivariate genotype-environment associations

(2018) Brenna R. Forester et al.   MOLECULAR ECOLOGY

Seascape genomics reveals adaptive divergence in a connected and commercially important mollusc, the greenlip abalone (Haliotis laevigata ), along a longitudinal environmental gradient

(2018) Jonathan Sandoval-Castillo et al.   MOLECULAR ECOLOGY

Oceanographic variation influences spatial genomic structure in the sea scallop, Placopecten magellanicus

(2018) Mallory Van Wyngaarden et al.   Ecology and Evolution

Putatively adaptive genetic variation in the giant California sea cucumber ( Parastichopus californicus ) as revealed by environmental association analysis of restriction‐site associated DNA sequencing data

(2018) Amanda Xuereb et al.   MOLECULAR ECOLOGY

RAD-Seq Reveals Patterns of Additive Polygenic Variation Caused by Spatially-Varying Selection in the American Eel (Anguilla rostrata)

(2017) Charles Babin et al.   Genome Biology and Evolution

Seascape genetics of a flatfish reveals local selection under high levels of gene flow

(2017) Eveline Diopere et al.   ICES JOURNAL OF MARINE SCIENCE

Temporal genetic change in North American Pacific oyster populations suggests caution in seascape genetics analyses of high gene-flow species

(2017) X Sun et al.   MARINE ECOLOGY PROGRESS SERIES

Effect of ocean acidification on growth, calcification, and gene expression in the pearl oyster, Pinctada fucata

(2017) Wenguang Liu et al.   MARINE ENVIRONMENTAL RESEARCH

Ocean acidification adversely influences metabolism, extracellular pH and calcification of an economically important marine bivalve, Tegillarca granosa

(2017) Xinguo Zhao et al.   MARINE ENVIRONMENTAL RESEARCH

Whole-genome sequencing approaches for conservation biology: Advantages, limitations and practical recommendations

(2017) Angela P. Fuentes-Pardo et al.   MOLECULAR ECOLOGY

Seascape genomics reveals fine-scale patterns of dispersal for a reef fish along the ecologically divergent coast of Northwestern Australia

(2017) Joseph D. DiBattista et al.   MOLECULAR ECOLOGY

Harnessing the Power of Genomics to Secure the Future of Seafood

(2017) Louis Bernatchez et al.   TRENDS IN ECOLOGY & EVOLUTION

Temperature, energy metabolism, and adaptive divergence in two oyster subspecies

(2017) Ao Li et al.   Ecology and Evolution

Genotype by sequencing identifies natural selection as a driver of intraspecific divergence in Atlantic populations of the high dispersal marine invertebrate, Macoma petalum

(2017) Stacy L. Metivier et al.   Ecology and Evolution

Development of a Medium Density Combined-Species SNP Array for Pacific and European Oysters ( Crassostrea gigas and Ostrea edulis )

(2017) Alejandro P. Gutierrez et al.   G3-Genes Genomes Genetics

Temporal genetic change in North American Pacific oyster populations suggests caution in seascape genetics analyses of high gene-flow species

(2017) X Sun et al.   MARINE ECOLOGY PROGRESS SERIES

Random forest missing data algorithms

(2017) Fei Tang et al.   Statistical Analysis and Data Mining

RAD sequencing resolves fine-scale population structure in a benthic invertebrate: implications for understanding phenotypic plasticity

(2017) David L. J. Vendrami et al.   Royal Society Open Science

Benthic communities under anthropogenic pressure show resilience across the Quaternary

(2017) Julieta C. Martinelli et al.   Royal Society Open Science

Detecting polygenic selection in marine populations by combining population genomics and quantitative genetics approaches

(2016) Pierre-Alexandre Gagnaire et al.   Current Zoology

Genetic load in marine animals: a review

(2016) Louis V. Plough   Current Zoology

Identifying patterns of dispersal, connectivity and selection in the sea scallop,Placopecten magellanicus,using RADseq-derived SNPs

(2016) Mallory Van Wyngaarden et al.   Evolutionary Applications

A decade of seascape genetics: contributions to basic and applied marine connectivity

(2016) KA Selkoe et al.   MARINE ECOLOGY PROGRESS SERIES

Erratum- Benestan et al . 2015

(2016)   MOLECULAR ECOLOGY

Seascape genomics provides evidence for thermal adaptation and current-mediated population structure in American lobster (Homarus americanus )

(2016) Laura Benestan et al.   MOLECULAR ECOLOGY

Modified low-salt CTAB extraction of high-quality DNA from contaminant-rich tissues

(2016) Jean-René Arseneau et al.   Molecular Ecology Resources

Detecting polygenic selection in marine populations by combining population genomics and quantitative genetics approaches

(2016) Pierre-Alexandre Gagnaire et al.   Current Zoology

Genetic load in marine animals: a review

(2016) Louis V. Plough   Current Zoology

A decade of seascape genetics: contributions to basic and applied marine connectivity

(2016) KA Selkoe et al.   MARINE ECOLOGY PROGRESS SERIES

Mitochondrial and Nuclear DNA Analysis of Genetic Heterogeneity Among Recruitment Cohorts of the European Flat Oyster Ostrea edulis

(2016) Nicolas Taris et al.   BIOLOGICAL BULLETIN

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

A practical guide to environmental association analysis in landscape genomics

(2015) Christian Rellstab et al.   MOLECULAR ECOLOGY

The relative power of genome scans to detect local adaptation depends on sampling design and statistical method

(2015) Katie E. Lotterhos et al.   MOLECULAR ECOLOGY

RAD genotyping reveals fine-scale genetic structuring and provides powerful population assignment in a widely distributed marine species, the American lobster (Homarus americanus)

(2015) Laura Benestan et al.   MOLECULAR ECOLOGY

Landscape-Level Variation in Disease Susceptibility Related to Shallow-Water Hypoxia

(2015) Denise L. Breitburg et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

A guide to statistical analysis in microbial ecology: a community-focused, living review of multivariate data analyses

(2014) Pier Luigi Buttigieg et al.   FEMS MICROBIOLOGY ECOLOGY

Breeding and Domestication of Eastern Oyster (Crassostrea virginica) Lines for Culture in the Mid-Atlantic, Usa: Line Development and Mass Selection for Disease Resistance

(2014) Anu Frank-Lawale et al.   JOURNAL OF SHELLFISH RESEARCH

Mechanisms of reef coral resistance to future climate change

(2014) S. R. Palumbi et al.   SCIENCE

Differences in extreme low salinity timing and duration differentially affect eastern oyster (Crassostrea virginica) size class growth and mortality in Breton Sound, LA

(2013) Megan K. La Peyre et al.   ESTUARINE COASTAL AND SHELF SCIENCE

Mitochondrial energetic metabolism-some general principles

(2013) Jean-Pierre Mazat et al.   IUBMB LIFE

Survival of oyster larvae in different salinities depends on source population within an estuary

(2013) L.E. Eierman et al.   JOURNAL OF EXPERIMENTAL MARINE BIOLOGY AND ECOLOGY

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

Signals of selection in outlier loci in a widely dispersing species across an environmental mosaic

(2013) Melissa H. Pespeni et al.   MOLECULAR ECOLOGY

Quantifying the Loss of a Marine Ecosystem Service: Filtration by the Eastern Oyster in US Estuaries

(2012) Philine S. E. zu Ermgassen et al.   Estuaries and Coasts

Effects of temperature and cadmium exposure on the mitochondria of oysters (Crassostrea virginica) exposed to hypoxia and subsequent reoxygenation

(2012) A. V. Ivanina et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Effective population sizes of eastern oyster Crassostrea virginica (Gmelin) populations in Delaware Bay, USA

(2012) Yan He et al.   JOURNAL OF MARINE RESEARCH

Understanding the Success and Failure of Oyster Populations: Periodicities ofPerkinsus marinus, and Oyster Recruitment, Mortality, and Size

(2012) Thomas M. Soniat et al.   JOURNAL OF SHELLFISH RESEARCH

Winter quiescence and spring awakening of the Eastern oyster Crassostrea virginica at its northernmost distribution limit

(2012) Luc A. Comeau et al.   MARINE BIOLOGY

The oyster genome reveals stress adaptation and complexity of shell formation

(2012) Guofan Zhang et al.   NATURE

Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species

(2012) Brant K. Peterson et al.   PLoS One

Impacts of upstream drought and water withdrawals on the health and survival of downstream estuarine oyster populations

(2012) Laura E. Petes et al.   Ecology and Evolution

PGDSpider: an automated data conversion tool for connecting population genetics and genomics programs

(2011) H. E. L. Lischer et al.   BIOINFORMATICS

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Sweepstakes Reproductive Success in Highly Fecund Marine Fish and Shellfish: A Review and Commentary

(2011) Dennis Hedgecock et al.   BULLETIN OF MARINE SCIENCE

Overfishing, disease, habitat loss, and potential extirpation of oysters in upper Chesapeake Bay

(2011) MJ Wilberg et al.   MARINE ECOLOGY PROGRESS SERIES

Understanding How Disease and Environment Combine to Structure Resistance in Estuarine Bivalve Populations

(2011) Eileen Hofmann et al.   OCEANOGRAPHY

Stacks : Building and Genotyping Loci De Novo From Short-Read Sequences

(2011) Julian M. Catchen et al.   G3-Genes Genomes Genetics

Local Adaptation in Marine Invertebrates

(2010) Eric Sanford et al.   Annual Review of Marine Science

Assessment of metabolic and immune changes in postspawning Pacific oyster Crassostrea gigas: identification of a critical period of vulnerability after spawning

(2010) Yan Li et al.   AQUACULTURE RESEARCH

Discriminant analysis of principal components: a new method for the analysis of genetically structured populations

(2010) Thibaut Jombart et al.   BMC GENETICS

Role of Flood Disturbance in Natural Oyster (Crassostrea virginica) Population Maintenance in an Estuary in South Texas, USA

(2010) Jennifer Beseres Pollack et al.   Estuaries and Coasts

Variance in the reproductive success of flat oyster Ostrea edulis L. assessed by parentage analyses in natural and experimental conditions

(2010) D. LALLIAS et al.   Genetics Research

The proteomic response of the mussel congeners Mytilus galloprovincialis and M. trossulus to acute heat stress: implications for thermal tolerance limits and metabolic costs of thermal stress

(2010) L. Tomanek et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

The combined influence of sub-optimal temperature and salinity on the in vitro viability of Perkinsus marinus, a protistan parasite of the eastern oyster Crassostrea virginica

(2010) Megan K. La Peyre et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

High-grading bias: subtle problems with assessing power of selected subsets of loci for population assignment

(2010) ROBIN S. WAPLES   MOLECULAR ECOLOGY

Assessing the power of informative subsets of loci for population assignment: standard methods are upwardly biased

(2010) E. C. ANDERSON   Molecular Ecology Resources

Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows

(2010) LAURENT EXCOFFIER et al.   Molecular Ecology Resources

The ecological role of bivalve shellfish aquaculture in the estuarine environment: A review with application to oyster and clam culture in West Coast (USA) estuaries

(2009) Brett R. Dumbauld et al.   AQUACULTURE

PCA-based population structure inference with generic clustering algorithms

(2009) Chih Lee et al.   BMC BIOINFORMATICS

How well do evolutionary trees describe genetic relationships among populations?

(2009) S T Kalinowski   HEREDITY

Population Studies of the Native Eastern Oyster,Crassostrea virginica, (Gmelin, 1791) in the James River, Virginia, USA

(2009) Roger Mann et al.   JOURNAL OF SHELLFISH RESEARCH

Shellfish Face Uncertain Future in High CO2 World: Influence of Acidification on Oyster Larvae Calcification and Growth in Estuaries

(2009) A. Whitman Miller et al.   PLoS One

A protocol for data exploration to avoid common statistical problems

(2009) Alain F. Zuur et al.   Methods in Ecology and Evolution

Random survival forests

(2008) Hemant Ishwaran et al.   Annals of Applied Statistics

Paradigm shifts in marine fisheries genetics: ugly hypotheses slain by beautiful facts

(2008) Lorenz Hauser et al.   FISH AND FISHERIES

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

(2008) M. Foll et al.   GENETICS

Study of Diseases and the Immune System of Bivalves Using Molecular Biology and Genomics

(2008) Camino Gestal et al.   REVIEWS IN FISHERIES SCIENCE