Navigating the Interface Between Landscape Genetics and Landscape Genomics

Unbroken: RADseq remains a powerful tool for understanding the genetics of adaptation in natural populations

(2017) Julian M. Catchen et al.   Molecular Ecology Resources

A comparison of regression methods for model selection in individual-based landscape genetic analysis

(2017) Andrew J. Shirk et al.   Molecular Ecology Resources

Responsible RAD: Striving for best practices in population genomic studies of adaptation

(2017) David B. Lowry et al.   Molecular Ecology Resources

No evidence for adaptation to local rhizobial mutualists in the legume Medicago lupulina

(2017) Tia L. Harrison et al.   Ecology and Evolution

Landscape genomic analysis of candidate genes for climate adaptation in a California endemic oak, Quercus lobata

(2016) V. L. Sork et al.   AMERICAN JOURNAL OF BOTANY

Finding the Genomic Basis of Local Adaptation: Pitfalls, Practical Solutions, and Future Directions

(2016) Sean Hoban et al.   AMERICAN NATURALIST

Multi-taxa integrated landscape genetics for zoonotic infectious diseases: deciphering variables influencing disease emergence

(2016) Sarah S.T. Leo et al.   GENOME

Environmental Correlation Analysis for Genes Associated with Protection against Malaria

(2016) Margaret J. Mackinnon et al.   MOLECULAR BIOLOGY AND EVOLUTION

Signatures of local adaptation in candidate genes of oaks (Quercusspp.) with respect to present and future climatic conditions

(2016) Christian Rellstab et al.   MOLECULAR ECOLOGY

Multilocus approaches for the measurement of selection on correlated genetic loci

(2016) Zachariah Gompert et al.   MOLECULAR ECOLOGY

Controlling false discoveries in genome scans for selection

(2016) Olivier François et al.   MOLECULAR ECOLOGY

minotaur: A platform for the analysis and visualization of multivariate results from genome scans with R Shiny

(2016) Robert Verity et al.   Molecular Ecology Resources

High performance computation of landscape genomic models including local indicators of spatial association

(2016) S. Stucki et al.   Molecular Ecology Resources

Harnessing the power of RADseq for ecological and evolutionary genomics

(2016) Kimberly R. Andrews et al.   NATURE REVIEWS GENETICS

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

Landscape genomics of Sphaeralcea ambigua in the Mojave Desert: a multivariate, spatially-explicit approach to guide ecological restoration

(2015) Daniel F. Shryock et al.   CONSERVATION GENETICS

Properties of different selection signature statistics and a new strategy for combining them

(2015) Y Ma et al.   HEREDITY

The role of parasite-driven selection in shaping landscape genomic structure in red grouse (Lagopus lagopus scotica)

(2015) Marius A. Wenzel et al.   MOLECULAR ECOLOGY

Local interspecies introgression is the main cause of extreme levels of intraspecific differentiation in mussels

(2015) Christelle Fraïsse et al.   MOLECULAR ECOLOGY

Signatures of positive selection: from selective sweeps at individual loci to subtle allele frequency changes in polygenic adaptation

(2015) Wolfgang Stephan   MOLECULAR ECOLOGY

A practical guide to environmental association analysis in landscape genomics

(2015) Christian Rellstab et al.   MOLECULAR ECOLOGY

Detecting spatial genetic signatures of local adaptation in heterogeneous landscapes

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

The genetic basis of population fecundity prediction across multiple field populations ofNilaparvata lugens

(2015) Zhong Xiang Sun et al.   MOLECULAR ECOLOGY

Targeted capture in evolutionary and ecological genomics

(2015) Matthew R. Jones 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

Fifteen years of genomewide scans for selection: trends, lessons and unaddressed genetic sources of complication

(2015) Ryan J. Haasl et al.   MOLECULAR ECOLOGY

TESS3: fast inference of spatial population structure and genome scans for selection

(2015) Kevin Caye et al.   Molecular Ecology Resources

Visualizing spatial population structure with estimated effective migration surfaces

(2015) Desislava Petkova et al.   NATURE GENETICS

Towards the identification of the loci of adaptive evolution

(2015) Carolina Pardo-Diaz et al.   Methods in Ecology and Evolution

Ecological genomics meets community-level modelling of biodiversity: mapping the genomic landscape of current and future environmental adaptation

(2014) Matthew C. Fitzpatrick et al.   ECOLOGY LETTERS

fastSTRUCTURE: Variational Inference of Population Structure in Large SNP Data Sets

(2014) Anil Raj et al.   GENETICS

Genome Scans for Detecting Footprints of Local Adaptation Using a Bayesian Factor Model

(2014) Nicolas Duforet-Frebourg et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evaluation of demographic history and neutral parameterization on the performance ofFSToutlier tests

(2014) Katie E. Lotterhos et al.   MOLECULAR ECOLOGY

Genome scan methods against more complex models: when and how much should we trust them?

(2014) Pierre de Villemereuil et al.   MOLECULAR ECOLOGY

Sequencing pools of individuals — mining genome-wide polymorphism data without big funding

(2014) Christian Schlötterer et al.   NATURE REVIEWS GENETICS

Microgeographic adaptation and the spatial scale of evolution

(2014) Jonathan L. Richardson et al.   TRENDS IN ECOLOGY & EVOLUTION

Advances and limits of using population genetics to understand local adaptation

(2014) Peter Tiffin et al.   TRENDS IN ECOLOGY & EVOLUTION

INTEGRATING LANDSCAPE GENOMICS AND SPATIALLY EXPLICIT APPROACHES TO DETECT LOCI UNDER SELECTION IN CLINAL POPULATIONS

(2013) Matthew R. Jones et al.   EVOLUTION

LANDSCAPE GENOMICS IN ATLANTIC SALMON (SALMO SALAR): SEARCHING FOR GENE-ENVIRONMENT INTERACTIONS DRIVING LOCAL ADAPTATION

(2013) Bourret Vincent et al.   EVOLUTION

Robust Identification of Local Adaptation from Allele Frequencies

(2013) T. Gunther et al.   GENETICS

Testing for Associations between Loci and Environmental Gradients Using Latent Factor Mixed Models

(2013) Eric Frichot et al.   MOLECULAR BIOLOGY AND EVOLUTION

Rangewide landscape genetics of an endemic Pacific northwestern salamander

(2013) Daryl R. Trumbo et al.   MOLECULAR ECOLOGY

Detecting selection along environmental gradients: analysis of eight methods and their effectiveness for outbreeding and selfing populations

(2013) Stéphane De Mita et al.   MOLECULAR ECOLOGY

Uncovering the genetic basis of adaptive change: on the intersection of landscape genomics and theoretical population genetics

(2013) Stéphane Joost et al.   MOLECULAR ECOLOGY

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

hzar: hybrid zone analysis using an R software package

(2013) Elizabeth P. Derryberry et al.   Molecular Ecology Resources

Ten years of landscape genetics

(2013) Stéphanie Manel et al.   TRENDS IN ECOLOGY & EVOLUTION

Detecting correlation between allele frequencies and environmental variables as a signature of selection. A fast computational approach for genome-wide studies

(2013) Gilles Guillot et al.   Spatial Statistics

Adaptive Genetic Variation on the Landscape: Methods and Cases

(2012) Sean D. Schoville et al.   Annual Review of Ecology Evolution and Systematics

A Critical Assessment of Storytelling: Gene Ontology Categories and the Importance of Validating Genomic Scans

(2012) Pavlos Pavlidis et al.   MOLECULAR BIOLOGY AND EVOLUTION

bgc: Software for Bayesian estimation of genomic clines

(2012) Z. Gompert et al.   Molecular Ecology Resources

Conditional and joint multiple-SNP analysis of GWAS summary statistics identifies additional variants influencing complex traits

(2012) Jian Yang et al.   NATURE GENETICS

Genome-wide efficient mixed-model analysis for association studies

(2012) Xiang Zhou et al.   NATURE GENETICS

Transposable Elements, Epigenetics, and Genome Evolution

(2012) N. V. Fedoroff   SCIENCE

Harnessing genomics for delineating conservation units

(2012) W. Chris Funk et al.   TRENDS IN ECOLOGY & EVOLUTION

Founder takes all: density-dependent processes structure biodiversity

(2012) Jonathan M. Waters et al.   TRENDS IN ECOLOGY & EVOLUTION

Genome sequences of wild and domestic bactrian camels

(2012)   Nature Communications

Epigenetic transgenerational inheritance of somatic transcriptomes and epigenetic control regions

(2012) Michael K Skinner et al.   GENOME BIOLOGY

THE QTN PROGRAM AND THE ALLELES THAT MATTER FOR EVOLUTION: ALL THAT'S GOLD DOES NOT GLITTER

(2011) Matthew V. Rockman   EVOLUTION

Bayesian estimation of genomic clines

(2011) ZACHARIAH GOMPERT et al.   MOLECULAR ECOLOGY

PoPoolation: A Toolbox for Population Genetic Analysis of Next Generation Sequencing Data from Pooled Individuals

(2011) Robert Kofler et al.   PLoS One

Adaptation to Climate Across the Arabidopsis thaliana Genome

(2011) A. M. Hancock et al.   SCIENCE

Signatures of Environmental Genetic Adaptation Pinpoint Pathogens as the Main Selective Pressure through Human Evolution

(2011) Matteo Fumagalli et al.   PLoS Genetics

Genevar: a database and Java application for the analysis and visualization of SNP-gene associations in eQTL studies

(2010) T.-P. Yang et al.   BIOINFORMATICS

Landscape evolutionary genomics

(2010) D. B. Lowry   Biology Letters

Detecting Selection in Population Trees: The Lewontin and Krakauer Test Extended

(2010) Maxime Bonhomme et al.   GENETICS

Using Environmental Correlations to Identify Loci Underlying Local Adaptation

(2010) G. Coop et al.   GENETICS

Comparing three different methods to detect selective loci using dominant markers

(2010) A. PÉREZ-FIGUEROA et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Tracking genes of ecological relevance using a genome scan in two independent regional population samples of Arabis alpina

(2010) BÉNÉDICTE N. PONCET et al.   MOLECULAR ECOLOGY

Perspectives on the use of landscape genetics to detect genetic adaptive variation in the field

(2010) STÉPHANIE MANEL et al.   MOLECULAR ECOLOGY

Considering spatial and temporal scale in landscape-genetic studies of gene flow

(2010) COREY DEVIN ANDERSON et al.   MOLECULAR ECOLOGY

Landscape genetics: where are we now?

(2010) ANDREW STORFER et al.   MOLECULAR ECOLOGY

Adaptation – not by sweeps alone

(2010) Jonathan K. Pritchard et al.   NATURE REVIEWS GENETICS

Genetic Evidence for High-Altitude Adaptation in Tibet

(2010) T. S. Simonson et al.   SCIENCE

A Commentary on ‘Common SNPs Explain a Large Proportion of the Heritability for Human Height’ by Yang et al. (2010)

(2010) Peter M. Visscher et al.   Twin Research and Human Genetics

Genetic Consequences of Range Expansions

(2009) Laurent Excoffier et al.   Annual Review of Ecology Evolution and Systematics

Fast model-based estimation of ancestry in unrelated individuals

(2009) D. H. Alexander et al.   GENOME RESEARCH

Spatial Inference of Admixture Proportions and Secondary Contact Zones

(2009) E. Durand et al.   MOLECULAR BIOLOGY AND EVOLUTION

Statistical methods in spatial genetics

(2009) GILLES GUILLOT et al.   MOLECULAR ECOLOGY

introgress: a software package for mapping components of isolation in hybrids

(2009) ZACHARIAH GOMPERT et al.   Molecular Ecology Resources

Potential etiologic and functional implications of genome-wide association loci for human diseases and traits

(2009) L. A. Hindorff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

THE LOCI OF EVOLUTION: HOW PREDICTABLE IS GENETIC EVOLUTION?

(2008) David L. Stern et al.   EVOLUTION

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

(2008) M. Foll et al.   GENETICS