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

No abstract is available for this paper.

• Publication year

  2014

• Venue

  Molecular Ecology

• Publication date

  2014-04-01

• Fields of study

  Biology, Medicine

• Identifiers
  DOI 10.1111/mec.12705PMID 24611968
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

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

  2013influential reference
• Evolutionary genomics: Detecting selection

  2013influential reference
• Testing for Associations between Loci and Environmental Gradients Using Latent Factor Mixed Models

  2012cited by this paper
• THE QTN PROGRAM AND THE ALLELES THAT MATTER FOR EVOLUTION: ALL THAT'S GOLD DOES NOT GLITTER

  2012cited by this paper
• A simulation study on the performance of differentiation‐based methods to detect selected loci using linked neutral markers

  2012influential reference
• Comparison of FST outlier tests for SNP loci under selection

  2011influential reference
• Progress and Promise of Genome-Wide Association Studies for Human Complex Trait Genetics

  2011cited by this paper
• THE GENETIC ARCHITECTURE OF ADAPTATION UNDER MIGRATION–SELECTION BALANCE

  2011cited by this paper
• Comparing three different methods to detect selective loci using dominant markers

  2010cited by this paper
• Adaptation – not by sweeps alone

  2010cited by this paper
• Using Environmental Correlations to Identify Loci Underlying Local Adaptation

  2010influential reference
• Who believes in whole-genome scans for selection?

  2009cited by this paper
• Detecting loci under selection in a hierarchically structured population

  2009cited by this paper
• A Genome-Scan Method to Identify Selected Loci Appropriate for Both Dominant and Codominant Markers: A Bayesian Perspective

  2008influential reference
• Next-generation DNA sequencing

  2008cited by this paper
• A synthesis of experimental work on parasite local adaptation.

  2007cited by this paper
• A spatial analysis method (SAM) to detect candidate loci for selection: towards a landscape genomics approach to adaptation

  2007cited by this paper
• The molecular ecologist's guide to expressed sequence tags

  2006cited by this paper
• The utility of QTL‐Linked markers to detect selective sweeps in natural populations — a case study of the EDA gene and a linked marker in threespine stickleback

  2006cited by this paper
• simuPOP: a forward-time population genetics simulation environment

  2005cited by this paper
• Identifying adaptive genetic divergence among populations from genome scans

  2004influential reference
• Strong control, conservative point estimation and simultaneous conservative consistency of false discovery rates: a unified approach

  2004influential reference
• Mutations arising in the wave front of an expanding population.

  2004cited by this paper
• QTL mapping for growth and leaf characters in bread wheat

  2003cited by this paper
• Statistical significance for genomewide studies

  2003influential reference
• The power and promise of population genomics: from genotyping to genome typing

  2003cited by this paper
• Interpretation of variation across marker loci as evidence of selection.

  2001cited by this paper
• Evaluating loci for use in the genetic analysis of population structure

  1996cited by this paper
• Controlling the false discovery rate: a practical and powerful approach to multiple testing

  1995cited by this paper
• Bayesian Model Selection in Social Research

  1995cited by this paper
• Distribution of gene frequency as a test of the theory of the selective neutrality of polymorphisms.

  1973cited by this paper

• Interplay between abiotic conditions and mycorrhizal abundance determines differentiation and potential adaptation in a Mediterranean orchid

  2026cites this paper
• Habitat Quality and Water Availability Affect Genetic Connectivity of Platypus Across an Urban Landscape

  2025cites this paper
• Assessing the adaptive potential of European beech populations to temperature and precipitation along a steep environmental gradient in the south-eastern Carpathians.

  2025cites this paper
• Genomic Signals of Local Adaptation Associated With Environmental Variables in Eleginops maclovinus From Northern Chilean Patagonia

  2025cites this paper
• Seascape Genomics of Red Abalone: Limited Range‐Wide Population Structure and Evidence for Local Adaptation

  2025cites this paper
• Divergent selection on dispersal targets chemosensory and neuronal genes in Tribolium castaneum

  2025cites this paper
• Harnessing landscape genomics to evaluate genomic vulnerability and future climate resilience in an East Asia perennial

  2025cites this paper
• Genetic and Environmental Similarities Drive Repeated Genomic Evolution in Island Lizards

  2025influential citation
• Local adaptation has a role in reducing vulnerability to climate change in a widespread Amazonian forest lizard

  2025cites this paper
• Standard methods and good practices in Apis honey bee omics research

  2025cites this paper
• Genomic adaptation in teak (Tectona grandis) to local climatic conditions and implication for resilient planting strategies on Java Island

  2025influential citation
• Biological Processes Underlying Genetic Adaptation of Larches to Cold and Dry Winter Conditions in Eastern Siberia

  2025cites this paper
• Parallel Signatures of Diet Adaptation in the Invasive Common Myna Genome

  2024cites this paper
• Conservation genomics of the wild pumpkin Cucurbita radicans in Central Mexico: The influence of a changing environment on the genetic diversity and differentiation of a rare species

  2024cites this paper
• Rolling down that mountain: microgeographical adaptive divergence during a fast population expansion along a steep environmental gradient in European beech

  2024cites this paper
• Concordant Signal of Genetic Variation Across Marker Densities in the Desert Annual Chylismia brevipes Is Linked With Timing of Winter Precipitation

  2024cites this paper
• Genomic signatures of climate adaptation in bank voles

  2024cites this paper
• Demographic History and Adaptive Evolution of Indo‐Pacific Bottlenose Dolphins (Tursiops aduncus) in Western Australia

  2024cites this paper
• Combined Use of Univariate and Multivariate Approaches to Detect Selection Signatures Associated with Milk or Meat Production in Cattle

  2024cites this paper
• Genomic Introgression Between Critically Endangered and Stable Species of Darwin's Tree Finches on the Galapagos Islands

  2024cites this paper
• Climate Adaptation and Genetic Differentiation in the Mosquito Species Culex tarsalis

  2024cites this paper
• Testing source elevation versus genotype as predictors of sugar pine performance in a post-fire restoration planting.

  2024cites this paper
• Expression–environment associations in transcriptomic heat stress responses for a global plant lineage

  2024cites this paper
• Evolution of parasites in the Anthropocene: new pressures, new adaptive directions

  2024cites this paper
• Genomic responses to climate: Understanding local adaptation in the Andean tree species Nothofagus pumilio and implications for a changing world

  2024cites this paper
• Genomic Diversity Illuminates the Environmental Adaptation of Drosophila suzukii

  2024cites this paper
• Genomic analysis of NE Atlantic sardine (Sardina pilchardus) reveals reduced variation in a recently established North Sea population and directs reconsideration of management units

  2024cites this paper
• Geography and the Environment Shape the Landscape Genetics of the Vulnerable Species Ulmus lamellosa in Northern China

  2024cites this paper
• A multidisciplinary approach to describe population structure of Solea solea in the Mediterranean Sea

  2024cites this paper
• Divergent selection in a Mediterranean pine on local spatial scales

  2023cites this paper
• Environmental selection, rather than neutral processes, best explain regional patterns of diversity in a tropical rainforest fish

  2023cites this paper
• Genetic depletion does not prevent rapid evolution in island‐introduced lizards

  2023cites this paper
• Loci associated with maturation, migration and appetite control are linked with signals of fine-scale local selection in a large Atlantic salmon population

  2023cites this paper
• The paradox of adaptive trait clines with nonclinal patterns in the underlying genes

  2023cites this paper
• Key triggers of adaptive genetic variability of sessile oak [Q. petraea (Matt.) Liebl.] from the Balkan refugia: outlier detection and association of SNP loci from ddRAD-seq data

  2023cites this paper
• The genomic and epigenetic footprint of local adaptation to variable climates in kiwifruit

  2023cites this paper
• Using landscape genomics to assess local adaptation and genomic vulnerability of a perennial herb Tetrastigma hemsleyanum (Vitaceae) in subtropical China

  2023cites this paper
• Staying in situ or shifting range under ongoing climate change: A case of an endemic herb in the Himalaya‐Hengduan Mountains across elevational gradients

  2023cites this paper
• Genome‐phenotype‐environment associations identify signatures of selection in a panmictic population of threespine stickleback

  2023cites this paper
• Genomic Diversity Illuminates the Environmental Adaptation of Drosophila suzukii

  2023cites this paper
• Temporal genomics help in deciphering neutral and adaptive patterns in the contemporary evolution of kelp populations

  2023cites this paper
• Putative adaptive loci show parallel clinal variation in a California‐endemic wildflower

  2023cites this paper
• Multi-locus genomic signatures of local adaptation to snow across the landscape in California populations of a willow leaf beetle

  2023cites this paper
• Subtle limits to connectivity revealed by outlier loci within two divergent metapopulations of the deep‐sea hydrothermal gastropod Ifremeria nautilei

  2022cites this paper
• Impact of roadside burning on genetic diversity in a high‐biomass invasive grass

  2022cites this paper
• Exploratory analysis of multi‐trait coadaptations in light of population history

  2022cites this paper
• Neutral and outlier single nucleotide polymorphisms disentangle the evolutionary history of a coastal Solanaceae species

  2022cites this paper
• Adaptive potential of Coffea canephora from Uganda in response to climate change

  2022cites this paper
• Habitat‐linked genetic variation supports microgeographic adaptive divergence in an island‐endemic bird species

  2022cites this paper
• Genetics, Landscape

  2022cites this paper
• Widespread genomic signatures of reproductive isolation and sex-specific selection in the Eastern Yellow Robin, Eopsaltria australis

  2022cites this paper
• Genomic Analyses Implicate the Amazon–Orinoco Plume as the Driver of Cryptic Speciation in a Swimming Crab

  2022cites this paper
• Genomic footprints of selection in early-and late-flowering pearl millet landraces

  2022cites this paper
• From common gardens to candidate genes: exploring local adaptation to climate in red spruce

  2022cites this paper
• Using landscape genomics to delineate future adaptive potential for climate change in the Yosemite toad (Anaxyrus canorus)

  2022cites this paper
• Signals of adaptation to agricultural stress in the genomes of two European bumblebees

  2022cites this paper
• A convoluted tale of hybridization between two Petunia species from a transitional zone in South America

  2022cites this paper
• Evolution of an Amazonian Fish Is Driven by Allopatric Divergence Rather Than Ecological Divergence

  2022cites this paper
• Detecting Local Adaptation between North and South European Atlantic Salmon Populations

  2022cites this paper
• A cold-water fish striving in a warming ocean: Insights from whole-genome sequencing of the Greenland halibut in the Northwest Atlantic

  2022cites this paper
• Finding the adaptive needles in a population‐structured haystack: A case study in a New Zealand mollusc

  2022cites this paper
• Genomic signatures of local adaptation in recent invasive Aedes aegypti populations in California

  2022cites this paper
• Genome-Wide Analysis Reveals Selection Signatures Involved in Meat Traits and Local Adaptation in Semi-Feral Maremmana Cattle

  2021cites this paper
• The genomic signal of local environmental adaptation in Aedes aegypti mosquitoes

  2021cites this paper
• EST‐SSR‐based landscape genetics of Pseudotaxus chienii, a tertiary relict conifer endemic to China

  2021cites this paper
• The effects of climate and demographic history in shaping genomic variation across populations of the Desert Horned Lizard (Phrynosoma platyrhinos)

  2021cites this paper
• Population structure and adaptive variation of Helichrysum italicum (Roth) G. Don along eastern Adriatic temperature and precipitation gradient

  2021cites this paper
• Long distance migration is a major factor driving local adaptation at continental scale in Coho Salmon

  2021cites this paper
• The role of structural variants in pest adaptation and genome evolution of the Colorado potato beetle, Leptinotarsa decemlineata (Say)

  2021cites this paper
• Low genome‐wide divergence between two lizard populations with high adaptive phenotypic differentiation

  2021cites this paper
• Genomic signatures of natural selection at phenology-related genes in a widely distributed tree species Fagus sylvatica L

  2021cites this paper
• Physical geography, isolation by distance and environmental variables shape genomic variation of wild barley (Hordeum vulgare L. ssp. spontaneum) in the Southern Levant

  2021cites this paper
• Phenotypic and genomic diversification with isolation by environment along elevational gradients in a neotropical treefrog

  2021influential citation
• Statistics, machine learning and deep learning for population genetic inference

  2021cites this paper
• Genetic signatures of divergent selection in European beech (Fagus sylvatica L.) are associated with the variation in temperature and precipitation across its distribution range

  2021cites this paper
• Association of putatively adaptive genetic variation with climatic variables differs between a parasite and its host

  2021cites this paper
• Convergent Adaptation to Quantitative Host Resistance in a Major Plant Pathogen

  2021cites this paper
• Spatial areas of genotype probability: Predicting the spatial distribution of adaptive genetic variants under future climatic conditions

  2021cites this paper
• Genetic response to human‐induced habitat changes in the marine environment: A century of evolution of European sprat in Landvikvannet, Norway

  2021cites this paper
• Prospects and limitations of genomic offset in conservation management

  2021cites this paper
• Drivers of neutral and adaptive differentiation in pike (Esox lucius) populations from contrasting environments

  2021cites this paper
• Using gradient Forest to predict climate response and adaptation in Cork oak

  2021cites this paper
• Complementary genomic and epigenomic adaptation to environmental heterogeneity

  2021cites this paper
• Linking genomic signatures of selection to expression variation and direct evidence of local adaptation

  2020cites this paper
• Genomic evidence of introgression and adaptation in a model subtropical tree species, Eucalyptus grandis

  2020cites this paper
• Exploring genomic variation associated with drought stress in Picea mariana populations

  2020cites this paper
• The impact of biological invasion and genomic local adaptation on the 1 geographical distribution of Aedes aegypti in Panama 2

  2020cites this paper
• Genomic signatures of convergent adaptation to Alpine environments in three Brassicaceae species

  2020cites this paper
• Local adaptation across a complex bioclimatic landscape in two montane bumble bee species

  2020cites this paper
• Identifying loci under selection via explicit demographic models

  2020cites this paper
• Incorporating putatively neutral and adaptive genomic data into marine conservation planning

  2020cites this paper
• Signatures of local adaptation in the spatial genetic structure of the ascidian Pyura chilensis along the southeast Pacific coast

  2020cites this paper
• The influence of environmental variation on the genetic structure of a poison frog distributed across continuous Amazonian rainforest.

  2020cites this paper
• Genome scans for selection and introgression based on k‐nearest neighbour techniques

  2020cites this paper
• Demographic history and genomics of local adaptation in blue tit populations

  2020cites this paper
• Harnessing landscape genomics to identify future climate resilient genotypes in a desert annual

  2020influential citation
• Population Genomics: Marine Organisms

  2020cites this paper
• Global gene flow releases invasive plants from environmental constraints on genetic diversity

  2020cites this paper
• Species conservation in the face of global environmental changes: surface-based modelling of geo-environmental data to identify vulnerable populations

  2020cites this paper
• Patterns of population genomic diversity in the invasive Japanese knotweed species complex

  2020cites this paper