Pleistocene glacial cycles drive isolation, gene flow and speciation in the high-elevation Andes

Convergent evolution of high elevation plant growth forms and geographically structured variation in Andean Lupinus (Fabaceae)

(2018) Natalia Contreras-Ortiz et al.   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

Gene flow, ancient polymorphism, and ecological adaptation shape the genomic landscape of divergence among Darwin's finches

(2017) Fan Han et al.   GENOME RESEARCH

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

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

Homogenization of Populations in the Wildflower, Texas Bluebonnet (Lupinus texensis)

(2017) Kathryn G Turner et al.   JOURNAL OF HEREDITY

PhyloNetworks: A Package for Phylogenetic Networks

(2017) Claudia Solís-Lemus et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genomewide patterns of variation in genetic diversity are shared among populations, species and higher-order taxa

(2017) Nagarjun Vijay et al.   MOLECULAR ECOLOGY

Conflicting phylogenomic signals reveal a pattern of reticulate evolution in a recent high-Andean diversification (Asteraceae: Astereae: Diplostephium )

(2017) Oscar M. Vargas et al.   NEW PHYTOLOGIST

The role of in situ species diversification for the evolution of high vascular plant species diversity in the European Alps—A review and interpretation of phylogenetic studies of the endemic flora of the Alps

(2017) Joachim W. Kadereit   PERSPECTIVES IN PLANT ECOLOGY EVOLUTION AND SYSTEMATICS

Uplift-driven diversification in the Hengduan Mountains, a temperate biodiversity hotspot

(2017) Yaowu Xing et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Are there many different routes to becoming a global biodiversity hotspot?

(2017) Colin E. Hughes   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Growth form evolution and hybridization in Senecio (Asteraceae) from the high equatorial Andes

(2017) Eva Dušková et al.   Ecology and Evolution

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

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

Introgression of Neandertal- and Denisovan-like Haplotypes Contributes to Adaptive Variation in Human Toll-like Receptors

(2016) Michael Dannemann et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Niche shifts and range expansions along cordilleras drove diversification in a high-elevation endemic plant genus in the tropical Andes

(2016) Filip Kolář et al.   MOLECULAR ECOLOGY

Genomic islands of divergence linked to ecotypic variation in sockeye salmon

(2016) Wesley A. Larson et al.   MOLECULAR ECOLOGY

Demographic history of speciation in aSenecioaltitudinal hybrid zone on Mt. Etna

(2016) Dmitry A. Filatov et al.   MOLECULAR ECOLOGY

Explosive ice age diversification of kiwi

(2016) Jason T. Weir et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mutation rate analysis via parent–progeny sequencing of the perennial peach. I. A low rate in woody perennials and a higher mutagenicity in hybrids

(2016) Zhengqing Xie et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Widespread adaptive evolution during repeated evolutionary radiations in New World lupins

(2016) Bruno Nevado et al.   Nature Communications

Low genetic variation and high differentiation across sky island populations of Lupinus alopecuroides (Fabaceae) in the northern Andes

(2016) Diana L. A. Vásquez et al.   Alpine Botany

Genomics of Rapid Incipient Speciation in Sympatric Threespine Stickleback

(2016) David A. Marques et al.   PLoS Genetics

Inferring Phylogenetic Networks with Maximum Pseudolikelihood under Incomplete Lineage Sorting

(2016) Claudia Solís-Lemus et al.   PLoS Genetics

A Phylogenomic Approach Based on PCR Target Enrichment and High Throughput Sequencing: Resolving the Diversity within the South American Species of Bartsia L. (Orobanchaceae)

(2016) Simon Uribe-Convers et al.   PLoS One

ASTRAL-II: coalescent-based species tree estimation with many hundreds of taxa and thousands of genes

(2015) Siavash Mirarab et al.   BIOINFORMATICS

Genomic tests of the species-pump hypothesis: Recent island connectivity cycles drive population divergence but not speciation in Caribbean crickets across the Virgin Islands

(2015) Anna Papadopoulou et al.   EVOLUTION

Computationally Efficient Composite Likelihood Statistics for Demographic Inference

(2015) Alec J. Coffman et al.   MOLECULAR BIOLOGY AND EVOLUTION

Species-specific responses to island connectivity cycles: refined models for testing phylogeographic concordance across a Mediterranean Pleistocene Aggregate Island Complex

(2015) Anna Papadopoulou et al.   MOLECULAR ECOLOGY

Adaptive radiation versus ‘radiation’ and ‘explosive diversification’: why conceptual distinctions are fundamental to understanding evolution

(2015) Thomas J. Givnish   NEW PHYTOLOGIST

The ubiquity of alpine plant radiations: from the Andes to the Hengduan Mountains

(2015) Colin E. Hughes et al.   NEW PHYTOLOGIST

Exploring Tree-Like and Non-Tree-Like Patterns Using Genome Sequences: An Example Using the Inbreeding Plant SpeciesArabidopsis thaliana(L.) Heynh

(2015) Noah W. M. Stenz et al.   SYSTEMATIC BIOLOGY

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

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

(2014) Anil Raj et al.   GENETICS

Reanalysis suggests that genomic islands of speciation are due to reduced diversity, not reduced gene flow

(2014) Tami E. Cruickshank et al.   MOLECULAR ECOLOGY

A major advance of tropical Andean glaciers during the Antarctic cold reversal

(2014) V. Jomelli et al.   NATURE

Climate refugia: joint inference from fossil records, species distribution models and phylogeography

(2014) Daniel G. Gavin et al.   NEW PHYTOLOGIST

Ecological Speciation in Nolina parviflora (Asparagaceae): Lacking Spatial Connectivity along of the Trans-Mexican Volcanic Belt

(2014) Eduardo Ruiz-Sanchez et al.   PLoS One

A Linear-Time Algorithm for Gaussian and Non-Gaussian Trait Evolution Models

(2014) Lam si Tung Ho et al.   SYSTEMATIC BIOLOGY

European sea bass genome and its variation provide insights into adaptation to euryhalinity and speciation

(2014) Mbaye Tine et al.   Nature Communications

Genomic Divergence during Speciation Driven by Adaptation to Altitude

(2013) Mark A. Chapman et al.   MOLECULAR BIOLOGY AND EVOLUTION

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

Astronomical tuning of long pollen records reveals the dynamic history of montane biomes and lake levels in the tropical high Andes during the Quaternary

(2013) Vladimir Torres et al.   QUATERNARY SCIENCE REVIEWS

Genomic islands of divergence are not affected by geography of speciation in sunflowers

(2013) S. Renaut et al.   Nature Communications

Páramo is the world's fastest evolving and coolest biodiversity hotspot

(2013) Santiago Madriñán et al.   Frontiers in Genetics

Goldilocks Meets Santa Rosalia: An Ephemeral Speciation Model Explains Patterns of Diversification Across Time Scales

(2012) Erica Bree Rosenblum et al.   Evolutionary Biology

The long wait for hybrid sterility in flowering plants

(2012) Donald A. Levin   NEW PHYTOLOGIST

Multiple Continental Radiations and Correlates of Diversification in Lupinus (Leguminosae): Testing for Key Innovation with Incomplete Taxon Sampling

(2012) Christopher S. Drummond et al.   SYSTEMATIC BIOLOGY

Genome Patterns of Selection and Introgression of Haplotypes in Natural Populations of the House Mouse (Mus musculus)

(2012) Fabian Staubach et al.   PLoS Genetics

Enhanced AFLP genome scans detect local adaptation in high-altitude populations of a small rodent (Microtus arvalis)

(2011) MARTIN C. FISCHER et al.   MOLECULAR ECOLOGY

Neotropical biodiversity: timing and potential drivers

(2011) Valentí Rull   TRENDS IN ECOLOGY & EVOLUTION

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Tropical and Temperate: Evolutionary History of Páramo Flora

(2010) Petr Sklenář et al.   BOTANICAL REVIEW

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

Rapid parallel adaptive radiations from a single hybridogenic ancestral population

(2010) A. G. Hudson et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Rate and Molecular Spectrum of Spontaneous Mutations in Arabidopsis thaliana

(2010) S. Ossowski et al.   SCIENCE

Population Genomics of Parallel Adaptation in Threespine Stickleback using Sequenced RAD Tags

(2010) Paul A. Hohenlohe et al.   PLoS Genetics

THE ANDES: A GEOLOGICAL OVERVIEW FROM A BIOLOGICAL PERSPECTIVE

(2009) Alan Graham   ANNALS OF THE MISSOURI BOTANICAL GARDEN

Islands of speciation or mirages in the desert? Examining the role of restricted recombination in maintaining species

(2009) M A F Noor et al.   HEREDITY

Divergent selection and heterogeneous genomic divergence

(2009) PATRIK NOSIL et al.   MOLECULAR ECOLOGY

Inferring the Joint Demographic History of Multiple Populations from Multidimensional SNP Frequency Data

(2009) Ryan N. Gutenkunst et al.   PLoS Genetics

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

(2008) M. Foll et al.   GENETICS

Timing of the late Quaternary glaciation in the Andes from ∼15 to 40° S

(2008) Roland Zech et al.   JOURNAL OF QUATERNARY SCIENCE

Diversification of Lupinus (Leguminosae) in the western New World: Derived evolution of perennial life history and colonization of montane habitats

(2008) Christopher S. Drummond   MOLECULAR PHYLOGENETICS AND EVOLUTION

Plant species radiations: where, when, why?

(2008) H. P. Linder   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES