Individualistic evolutionary responses of Central African rain forest plants to Pleistocene climatic fluctuations

A 90,000-year record of Afromontane forest responses to climate change

(2019) Anne-Marie Lézine et al.   SCIENCE

Phylogenomics of the Major Tropical Plant Family Annonaceae Using Targeted Enrichment of Nuclear Genes

(2019) Thomas L. P. Couvreur et al.   Frontiers in Plant Science

What has become of the refugia hypothesis to explain biological diversity in Amazonia?

(2019) Daniel Gomes da Rocha et al.   Ecology and Evolution

Fossil palm fruits from India indicate a Cretaceous origin of Arecaceae tribe Borasseae

(2019) Kelly K S Matsunaga et al.   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

ModelTest-NG: A New and Scalable Tool for the Selection of DNA and Protein Evolutionary Models

(2019) Diego Darriba et al.   MOLECULAR BIOLOGY AND EVOLUTION

A third of the tropical African flora is potentially threatened with extinction

(2019) T. Stévart et al.   Science Advances

Beyond trees: Biogeographical regionalization of tropical Africa

(2018) Vincent Droissart et al.   JOURNAL OF BIOGEOGRAPHY

Sky, sea, and forest islands: Diversification in the African leaf-folding frog Afrixalus paradorsalis (Anura: Hyperoliidae) of the Lower Guineo-Congolian rain forest

(2018) Kristin L. Charles et al.   JOURNAL OF BIOGEOGRAPHY

So many genes, so little time: A practical approach to divergence-time estimation in the genomic era

(2018) Stephen A. Smith et al.   PLoS One

Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7

(2018) Andrew Rambaut et al.   SYSTEMATIC BIOLOGY

A western Sahara centre of domestication inferred from pearl millet genomes

(2018) Concetta Burgarella et al.   Nature Ecology & Evolution

Phylogeography of Atlantic Forest glassfrogs (Vitreorana): when geography, climate dynamics and rivers matter

(2018) A. Paz et al.   HEREDITY

Taxonomic revision of the African genus Greenwayodendron (Annonaceae)

(2018) Brandet-Junior Lissambou et al.   PhytoKeys

Contrasting Rates of Molecular Evolution and Patterns of Selection among Gymnosperms and Flowering Plants

(2017) Amanda R. De La Torre et al.   MOLECULAR BIOLOGY AND EVOLUTION

Idiosyncratic responses to climate-driven forest fragmentation and marine incursions in reed frogs from Central Africa and the Gulf of Guinea Islands

(2017) Rayna C. Bell et al.   MOLECULAR ECOLOGY

Evaluating mechanisms of diversification in a Guineo-Congolian tropical forest frog using demographic model selection

(2017) Daniel M. Portik et al.   MOLECULAR ECOLOGY

Plant phylogeny as a window on the evolution of hyperdiversity in the tropical rainforest biome

(2017) Wolf L. Eiserhardt et al.   NEW PHYTOLOGIST

Pleistocene population expansions of shade-tolerant trees indicate fragmentation of the African rainforest during the Ice Ages

(2017) Rosalía Piñeiro et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Phenotypes in phylogeography: Species’ traits, environmental variation, and vertebrate diversification

(2016) Kelly R. Zamudio et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Neotropical forest expansion during the last glacial period challenges refuge hypothesis

(2016) Yuri L. R. Leite et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

HybPiper: Extracting Coding Sequence and Introns for Phylogenetics from High-Throughput Sequencing Reads Using Target Enrichment

(2016) Matthew G. Johnson et al.   Applications in Plant Sciences

Phylogenomic analyses of species relationships in the genusSabal(Arecaceae) using targeted sequence capture

(2015) Karolina Heyduk et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Megafaunal influences on tree recruitment in African equatorial forests

(2015) J. Terborgh et al.   ECOGRAPHY

Late Pleistocene molecular dating of past population fragmentation and demographic changes in African rain forest tree species supports the forest refuge hypothesis

(2015) Jérôme Duminil et al.   JOURNAL OF BIOGEOGRAPHY

Testing the role of ecology and life history in structuring genetic variation across a landscape: a trait-based phylogeographic approach

(2015) Andrea Paz et al.   MOLECULAR ECOLOGY

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

(2015) Kevin Caye et al.   Molecular Ecology Resources

Exploring population size changes using SNP frequency spectra

(2015) Xiaoming Liu et al.   NATURE GENETICS

The historical origins of palaeotropical intercontinental disjunctions in the pantropical flowering plant family Annonaceae

(2015) Daniel C. Thomas et al.   PERSPECTIVES IN PLANT ECOLOGY EVOLUTION AND SYSTEMATICS

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

Fast demographic traits promote high diversification rates of Amazonian trees

(2014) Timothy R. Baker et al.   ECOLOGY LETTERS

Contrasting spatial genetic structure in Annona crassiflora populations from fragmented and pristine savannas

(2014) Rosane G. Collevatti et al.   PLANT SYSTEMATICS AND EVOLUTION

Comparative Phylogeography in Rainforest Trees from Lower Guinea, Africa

(2014) Myriam Heuertz et al.   PLoS One

Historical distribution of Sundaland’s Dipterocarp rainforests at Quaternary glacial maxima

(2014) Niels Raes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

(2014) Remco Bouckaert et al.   PLoS Computational Biology

Comparative phylogeography of eight herbs and lianas (Marantaceae) in central African rainforests

(2014) Alexandra C. Ley et al.   Frontiers in Genetics

Tropical rain forest evolution: palms as a model group

(2013) Thomas LP Couvreur et al.   BMC BIOLOGY

Comparative phylogeography of African rain forest trees: A review of genetic signatures of vegetation history in the Guineo-Congolian region

(2013) Olivier J. Hardy et al.   COMPTES RENDUS GEOSCIENCE

Multimillion-year climatic effects on palm species diversity in Africa

(2013) Anne Blach-Overgaard et al.   ECOLOGY

INTEGRATIVE TESTING OF HOW ENVIRONMENTS FROM THE PAST TO THE PRESENT SHAPE GENETIC STRUCTURE ACROSS LANDSCAPES

(2013) Qixin He et al.   EVOLUTION

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

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

Dating clades with fossils and molecules: the case of Annonaceae

(2012) MICHAEL D. PIRIE et al.   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

The partitioning of Africa: statistically defined biogeographical regions in sub-Saharan Africa

(2012) H. Peter Linder et al.   JOURNAL OF BIOGEOGRAPHY

The impact of global climate change on genetic diversity within populations and species

(2012) Steffen U. Pauls et al.   MOLECULAR ECOLOGY

Phylogeography of an Atlantic forest passerine reveals demographic stability through the last glacial maximum

(2012) Henrique Batalha-Filho et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Primate DNA suggests long-term stability of an African rainforest

(2012) Julie M. Allen et al.   Ecology and Evolution

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

(2011) H. Li   BIOINFORMATICS

Origin and global diversification patterns of tropical rain forests: inferences from a complete genus-level phylogeny of palms

(2011) Thomas LP Couvreur et al.   BMC BIOLOGY

Rate variation and estimation of divergence times using strict and relaxed clocks

(2011) Richard P Brown et al.   BMC EVOLUTIONARY BIOLOGY

Comparative phylogeography reveals a shared impact of pleistocene environmental change in shaping genetic diversity within nine Anopheles mosquito species across the Indo-Burma biodiversity hotspot

(2011) KATY MORGAN et al.   MOLECULAR ECOLOGY

Orbital scale vegetation change in Africa

(2011) Lydie Dupont   QUATERNARY SCIENCE REVIEWS

Discriminant analysis of principal components: a new method for the analysis of genetically structured populations

(2010) Thibaut Jombart et al.   BMC GENETICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Population history and gene dispersal inferred from spatial genetic structure of a Central African timber tree, Distemonanthus benthamianus (Caesalpinioideae)

(2010) G D G Debout et al.   HEREDITY

Testing Putative African Tropical Forest Refugia Using Chloroplast and Nuclear DNA Phylogeography

(2010) Andrew J. Lowe et al.   Tropical Plant Biology

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Forest Elephants: Tree Planters of the Congo

(2009) Stephen Blake et al.   BIOTROPICA

Testing comparative phylogeographic models of marine vicariance and dispersal using a hierarchical Bayesian approach

(2009) Michael J Hickerson et al.   BMC EVOLUTIONARY BIOLOGY

BIOMOD - a platform for ensemble forecasting of species distributions

(2009) Wilfried Thuiller et al.   ECOGRAPHY

The distribution of forest passerine birds and Quaternary climatic change in tropical Africa

(2009) A. W. Diamond et al.   JOURNAL OF ZOOLOGY

Bayesian Inference of Species Trees from Multilocus Data

(2009) J. Heled et al.   MOLECULAR BIOLOGY AND EVOLUTION

Refugia revisited: individualistic responses of species in space and time

(2009) J. R. Stewart et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Stability Predicts Genetic Diversity in the Brazilian Atlantic Forest Hotspot

(2009) A. C. Carnaval et al.   SCIENCE

adegenet: a R package for the multivariate analysis of genetic markers

(2008) Thibaut Jombart   BIOINFORMATICS

To what extent do microsatellite markers reflect genome-wide genetic diversity in natural populations?

(2008) ÜLO VÄLI et al.   MOLECULAR ECOLOGY

Calibrating the avian molecular clock

(2008) J. T. WEIR et al.   MOLECULAR ECOLOGY

What do we mean by ‘refugia’?

(2008) K BENNETT et al.   QUATERNARY SCIENCE REVIEWS