Genomic architecture of parallel ecological divergence: Beyond a single environmental contrast

Evolving Inversions

(2019) Rui Faria et al.   TRENDS IN ECOLOGY & EVOLUTION

Supergene Evolution Triggered by the Introgression of a Chromosomal Inversion

(2018) Paul Jay et al.   CURRENT BIOLOGY

Repeated Selection of Alternatively Adapted Haplotypes Creates Sweeping Genomic Remodeling in Stickleback

(2018) Susan Bassham et al.   GENETICS

Genomics of Parallel Ecological Speciation in Lake Victoria Cichlids

(2018) Joana Isabel Meier et al.   MOLECULAR BIOLOGY AND EVOLUTION

Eco-Evolutionary Genomics of Chromosomal Inversions

(2018) Maren Wellenreuther et al.   TRENDS IN ECOLOGY & EVOLUTION

Sympatric Speciation in the Genomic Era

(2018) Andrew D. Foote   TRENDS IN ECOLOGY & EVOLUTION

Repeated Selection of Alternatively Adapted Haplotypes Creates Sweeping Genomic Remodeling in Stickleback

(2018) Susan Bassham et al.   GENETICS

Concordant divergence of mitogenomes and a mitonuclear gene cluster in bird lineages inhabiting different climates

(2018) Hernán E. Morales et al.   Nature Ecology & Evolution

(Non)Parallel Evolution

(2018) Daniel I. Bolnick et al.   Annual Review of Ecology Evolution and Systematics

Measuring Genetic Differentiation from Pool-seq Data

(2018) Valentin Hivert et al.   GENETICS

Association mapping desiccation resistance within chromosomal inversions in the African malaria vector Anopheles gambiae

(2018) Diego Ayala et al.   MOLECULAR ECOLOGY

Genomic divergence between Spanish Littorina saxatilis ecotypes unravels limited admixture and extensive parallelism associated with population history

(2018) Tony Kess et al.   Ecology and Evolution

Multiple chromosomal rearrangements in a hybrid zone between Littorina saxatilis ecotypes

(2018) Rui Faria et al.   MOLECULAR ECOLOGY

Quantifying how constraints limit the diversity of viable routes to adaptation

(2018) Sam Yeaman et al.   PLoS Genetics

Interpreting the genomic landscape of speciation: a road map for finding barriers to gene flow

(2017) M. Ravinet et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Predictability and Parallelism of Multitrait Adaptation

(2017) Randall Brian Langerhans   JOURNAL OF HEREDITY

Genome architecture enables local adaptation of Atlantic cod despite high connectivity

(2017) Julia M. I. Barth et al.   MOLECULAR ECOLOGY

Genomic clustering of adaptive loci during parallel evolution of an Australian wildflower

(2017) Federico Roda et al.   MOLECULAR ECOLOGY

Adaptive and non-adaptive divergence in a common landscape

(2017) Joost A. M. Raeymaekers et al.   Nature Communications

Contrasting effects of environment and genetics generate a continuum of parallel evolution

(2017) Yoel E. Stuart et al.   Nature Ecology & Evolution

What explains rare and conspicuous colours in a snail? A test of time-series data against models of drift, migration or selection

(2016) K Johannesson et al.   HEREDITY

Targeted resequencing reveals geographical patterns of differentiation for loci implicated in parallel evolution

(2016) Anja M. Westram et al.   MOLECULAR ECOLOGY

Suitability of Different Mapping Algorithms for Genome-wide Polymorphism Scans with Pool-Seq Data

(2016) R. Kofler et al.   G3-Genes Genomes Genetics

What can be learnt from a snail?

(2015) Kerstin Johannesson   Evolutionary Applications

Genome-Wide Scan for Adaptive Divergence and Association with Population-Specific Covariates

(2015) M. Gautier   GENETICS

Chromosome inversions, adaptive cassettes and the evolution of species' ranges

(2015) Mark Kirkpatrick et al.   MOLECULAR ECOLOGY

Shared and nonshared genomic divergence in parallel ecotypes ofLittorina saxatilisat a local scale

(2015) Mark Ravinet et al.   MOLECULAR ECOLOGY

Convergent Evolution During Local Adaptation to Patchy Landscapes

(2015) Peter L. Ralph et al.   PLoS Genetics

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Do the same genes underlie parallel phenotypic divergence in differentLittorina saxatilispopulations?

(2014) A. M. Westram et al.   MOLECULAR ECOLOGY

Stick Insect Genomes Reveal Natural Selection's Role in Parallel Speciation

(2014) V. Soria-Carrasco et al.   SCIENCE

Parallel evolution of Nicaraguan crater lake cichlid fishes via non-parallel routes

(2014) Kathryn R. Elmer et al.   Nature Communications

PARALLEL EVOLUTION OF LOCAL ADAPTATION AND REPRODUCTIVE ISOLATION IN THE FACE OF GENE FLOW

(2013) Roger K. Butlin et al.   EVOLUTION

THE GENETIC ARCHITECTURE OF REPRODUCTIVE ISOLATION DURING SPECIATION-WITH-GENE-FLOW IN LAKE WHITEFISH SPECIES PAIRS ASSESSED BY RAD SEQUENCING

(2013) Pierre-Alexandre Gagnaire et al.   EVOLUTION

Shared selective pressure and local genomic landscape lead to repeatable patterns of genomic divergence in sunflowers

(2013) Sebastien Renaut et al.   MOLECULAR ECOLOGY

Genomic rearrangements and the evolution of clusters of locally adaptive loci

(2013) S. Yeaman   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The genomic basis of adaptive evolution in threespine sticklebacks

(2012) Felicity C. Jones et al.   NATURE

The probability of genetic parallelism and convergence in natural populations

(2012) G. L. Conte et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

PoPoolation2: identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq)

(2011) R. Kofler et al.   BIOINFORMATICS

Glacial History of the North Atlantic Marine Snail, Littorina saxatilis, Inferred from Distribution of Mitochondrial DNA Lineages

(2011) Marina Panova et al.   PLoS One

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Using Environmental Correlations to Identify Loci Underlying Local Adaptation

(2010) G. Coop et al.   GENETICS

An EST-based genome scan using 454 sequencing in the marine snail Littorina saxatilis

(2010) J. GALINDO et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Repeated evolution of reproductive isolation in a marine snail: unveiling mechanisms of speciation

(2010) K. Johannesson et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Extreme Female Promiscuity in a Non-Social Invertebrate Species

(2010) Marina Panova et al.   PLoS One

Chromosomal speciation revisited: rearranging theory with pieces of evidence

(2010) Rui Faria et al.   TRENDS IN ECOLOGY & EVOLUTION

How and Why Chromosome Inversions Evolve

(2010) Mark Kirkpatrick   PLOS BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Revisiting the Impact of Inversions in Evolution: From Population Genetic Markers to Drivers of Adaptive Shifts and Speciation?

(2008) Ary A. Hoffmann et al.   Annual Review of Ecology Evolution and Systematics

Evolution of genome architecture

(2008) Eugene V. Koonin   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

Adaptation from standing genetic variation

(2007) R BARRETT et al.   TRENDS IN ECOLOGY & EVOLUTION