Long-term balancing selection drives evolution of immunity genes in Capsella

Evidence for Adaptive Introgression of Disease Resistance Genes Among Closely Related Arabidopsis Species

(2017) Jesper Bechsgaard et al.   G3-Genes Genomes Genetics

1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana

(2016) Carlos Alonso-Blanco et al.   CELL

Genomic Flatlining in the Endangered Island Fox

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Sequencing of the genus Arabidopsis identifies a complex history of nonbifurcating speciation and abundant trans-specific polymorphism

(2016) Polina Yu Novikova et al.   NATURE GENETICS

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(2016) Chen-Shan Chin et al.   NATURE METHODS

Phylogenomics Reveals Three Sources of Adaptive Variation during a Rapid Radiation

(2016) James B. Pease et al.   PLOS BIOLOGY

Long-Term Balancing Selection in LAD1 Maintains a Missense Trans-Species Polymorphism in Humans, Chimpanzees, and Bonobos

(2015) João C. Teixeira et al.   MOLECULAR BIOLOGY AND EVOLUTION

Detecting balancing selection in genomes: limits and prospects

(2015) Anna Fijarczyk et al.   MOLECULAR ECOLOGY

Evidence for archaic adaptive introgression in humans

(2015) Fernando Racimo et al.   NATURE REVIEWS GENETICS

Hybrid origins and the earliest stages of diploidization in the highly successful recent polyploidCapsella bursa-pastoris

(2015) Gavin M. Douglas et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genetic rescue to the rescue

(2015) Andrew R. Whiteley et al.   TRENDS IN ECOLOGY & EVOLUTION

Divergent sorting of a balanced ancestral polymorphism underlies the establishment of gene-flow barriers in Capsella

(2015) Adrien Sicard et al.   Nature Communications

Non-reciprocal Interspecies Hybridization Barriers in the Capsella Genus Are Established in the Endosperm

(2015) Carolin A. Rebernig et al.   PLoS Genetics

Enhanced Arabidopsis pattern-triggered immunity by overexpression of cysteine-rich receptor-like kinases

(2015) Yu-Hung Yeh et al.   Frontiers in Plant Science

Second-generation PLINK: rising to the challenge of larger and richer datasets

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The Evolutionary Genomics of Cichlid Fishes: Explosive Speciation and Adaptation in the Postgenomic Era

(2014) Frederico Henning et al.   Annual Review of Genomics and Human Genetics

AliView: a fast and lightweight alignment viewer and editor for large datasets

(2014) Anders Larsson   BIOINFORMATICS

Mating system shifts and transposable element evolution in the plant genus Capsella

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SPEED OF ADAPTATION AND GENOMIC FOOTPRINTS OF HOST-PARASITE COEVOLUTION UNDER ARMS RACE AND TRENCH WARFARE DYNAMICS

(2014) Aurélien Tellier et al.   EVOLUTION

SNP2GO: Functional Analysis of Genome-Wide Association Studies

(2014) David Szkiba et al.   GENETICS

Altitude adaptation in Tibetans caused by introgression of Denisovan-like DNA

(2014) Emilia Huerta-Sánchez et al.   NATURE

The long-term maintenance of a resistance polymorphism through diffuse interactions

(2014) Talia L. Karasov et al.   NATURE

Seed dispersal in time can counteract the effect of gene flow between natural populations ofArabidopsis thaliana

(2014) Mohsen Falahati-Anbaran et al.   NEW PHYTOLOGIST

Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

(2014) Bruce J. Walker et al.   PLoS One

A Model-Based Approach for Identifying Signatures of Ancient Balancing Selection in Genetic Data

(2014) Michael DeGiorgio et al.   PLoS Genetics

Evidence for Widespread Positive and Negative Selection in Coding and Conserved Noncoding Regions of Capsella grandiflora

(2014) Robert J. Williamson et al.   PLoS Genetics

Improving the Accuracy and Efficiency of Identity-by-Descent Detection in Population Data

(2013) B. L. Browning et al.   GENETICS

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Adaptive introgression in animals: examples and comparison to new mutation and standing variation as sources of adaptive variation

(2013) Philip W. Hedrick   MOLECULAR ECOLOGY

The Capsella rubella genome and the genomic consequences of rapid mating system evolution

(2013) Tanja Slotte et al.   NATURE GENETICS

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data

(2013) Chen-Shan Chin et al.   NATURE METHODS

Arabidopsis RECEPTOR-LIKE PROTEIN30 and Receptor-Like Kinase SUPPRESSOR OF BIR1-1/EVERSHED Mediate Innate Immunity to Necrotrophic Fungi

(2013) W. Zhang et al.   PLANT CELL

Fungal Endopolygalacturonases Are Recognized as Microbe-Associated Molecular Patterns by the Arabidopsis Receptor-Like Protein RESPONSIVENESS TO BOTRYTIS POLYGALACTURONASES1

(2013) L. Zhang et al.   PLANT PHYSIOLOGY

Multiple Instances of Ancient Balancing Selection Shared Between Humans and Chimpanzees

(2013) E. M. Leffler et al.   SCIENCE

An Atypical Kinase under Balancing Selection Confers Broad-Spectrum Disease Resistance in Arabidopsis

(2013) Carine Huard-Chauveau et al.   PLoS Genetics

Genomic Identification of Founding Haplotypes Reveals the History of the Selfing Species Capsella rubella

(2013) Yaniv Brandvain et al.   PLoS Genetics

Robust Demographic Inference from Genomic and SNP Data

(2013) Laurent Excoffier et al.   PLoS Genetics

Signatures of balancing selection are maintained at disease resistance loci following mating system evolution and a population bottleneck in the genus Capsella

(2012) Gesseca Gos et al.   BMC EVOLUTIONARY BIOLOGY

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(2012) Pablo Cingolani et al.   FLY

Ancient Admixture in Human History

(2012) N. Patterson et al.   GENETICS

‘Missing link’ speciesCapsella orientalisandCapsella thracicaelucidate evolution of model plant genusCapsella(Brassicaceae)

(2012) HERBERT HURKA et al.   MOLECULAR ECOLOGY

Butterfly genome reveals promiscuous exchange of mimicry adaptations among species

(2012) Kanchon K. Dasmahapatra et al.   NATURE

The ABO blood group is a trans-species polymorphism in primates

(2012) L. Segurel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Computational Prediction and Molecular Characterization of an Oomycete Effector and the Cognate Arabidopsis Resistance Gene

(2012) Sandra Goritschnig et al.   PLoS Genetics

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

GENETIC ARCHITECTURE AND ADAPTIVE SIGNIFICANCE OF THE SELFING SYNDROME INCAPSELLA

(2011) Tanja Slotte et al.   EVOLUTION

Unusual signatures of highly adaptable R-loci in closely-related Arabidopsis species

(2011) Jiao Wang et al.   GENE

Testing for Ancient Admixture between Closely Related Populations

(2011) Eric Y. Durand et al.   MOLECULAR BIOLOGY AND EVOLUTION

Contrasting demographic history and population structure in Capsella rubella and Capsella grandiflora, two closely related species with different mating systems

(2011) KATE R. ST. ONGE et al.   MOLECULAR ECOLOGY

Spontaneous epigenetic variation in the Arabidopsis thaliana methylome

(2011) Claude Becker et al.   NATURE

Whole-genome sequencing of multiple Arabidopsis thaliana populations

(2011) Jun Cao et al.   NATURE GENETICS

Genetics, Evolution, and Adaptive Significance of the Selfing Syndrome in the GenusCapsella

(2011) Adrien Sicard et al.   PLANT CELL

Repeated Adaptive Introgression at a Gene under Multiallelic Balancing Selection

(2011) Vincent Castric et al.   PLoS Genetics

Natural allelic variation underlying a major fitness trade-off in Arabidopsis thaliana

(2010) Marco Todesco et al.   NATURE

Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines

(2010) Susanna Atwell et al.   NATURE

The Rate and Molecular Spectrum of Spontaneous Mutations in Arabidopsis thaliana

(2010) S. Ossowski et al.   SCIENCE

A Draft Sequence of the Neandertal Genome

(2010) R. E. Green et al.   SCIENCE

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

Fast model-based estimation of ancestry in unrelated individuals

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

Recent speciation associated with the evolution of selfing in Capsella

(2009) J. P. Foxe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Recent speciation of Capsella rubella from Capsella grandiflora, associated with loss of self-incompatibility and an extreme bottleneck

(2009) Y.-L. Guo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Simultaneous alignment of short reads against multiple genomes

(2009) Korbinian Schneeberger et al.   GENOME BIOLOGY

Pattern-recognition receptors in plant innate immunity

(2008) Cyril Zipfel   CURRENT OPINION IN IMMUNOLOGY

Sequencing of natural strains of Arabidopsis thaliana with short reads

(2008) S. Ossowski et al.   GENOME RESEARCH

Genomic Consequences of Outcrossing and Selfing in Plants

(2008) Stephen I. Wright et al.   INTERNATIONAL JOURNAL OF PLANT SCIENCES

Formal definition and dating of the GSSP (Global Stratotype Section and Point) for the base of the Holocene using the Greenland NGRIP ice core, and selected auxiliary records

(2008) Mike Walker et al.   JOURNAL OF QUATERNARY SCIENCE

Ecological costs of biotrophic versus necrotrophic pathogen resistance, the hypersensitive response and signal transduction

(2008) Daniel J. Kliebenstein et al.   PLANT SCIENCE