Gene-Tree Reconciliation with MUL-Trees to Resolve Polyploidy Events

Has the connection between polyploidy and diversification actually been tested?

(2016) Elizabeth A Kellogg   CURRENT OPINION IN PLANT BIOLOGY

Evaluating and Characterizing Ancient Whole-Genome Duplications in Plants with Gene Count Data

(2016) George P. Tiley et al.   Genome Biology and Evolution

The Limited Contribution of Reciprocal Gene Loss to Increased Speciation Rates Following Whole-Genome Duplication

(2015) Christopher D. Muir et al.   AMERICAN NATURALIST

Inferring the mode of origin of polyploid species from next-generation sequence data

(2015) Camille Roux et al.   MOLECULAR ECOLOGY

Ensembl Genomes 2016: more genomes, more complexity

(2015) Paul Julian Kersey et al.   NUCLEIC ACIDS RESEARCH

The butterfly plant arms-race escalated by gene and genome duplications

(2015) Patrick P. Edger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Species-Level Phylogeny and Polyploid Relationships inHordeum(Poaceae) Inferred by Next-Generation Sequencing andIn SilicoCloning of Multiple Nuclear Loci

(2015) Jonathan Brassac et al.   SYSTEMATIC BIOLOGY

Beyond the Whole-Genome Duplication: Phylogenetic Evidence for an Ancient Interspecies Hybridization in the Baker's Yeast Lineage

(2015) Marina Marcet-Houben et al.   PLOS BIOLOGY

Early genome duplications in conifers and other seed plants

(2015) Z. Li et al.   Science Advances

Multiple Polyploidy Events in the Early Radiation of Nodulating and Nonnodulating Legumes

(2014) Steven B. Cannon et al.   MOLECULAR BIOLOGY AND EVOLUTION

Triticeae Resources in Ensembl Plants

(2014) Dan M. Bolser et al.   PLANT AND CELL PHYSIOLOGY

Ancient hybridizations among the ancestral genomes of bread wheat

(2014) T. Marcussen et al.   SCIENCE

Disentangling Methodological and Biological Sources of Gene Tree Discordance on Oryza (Poaceae) Chromosome 3

(2014) Derrick J. Zwickl et al.   SYSTEMATIC BIOLOGY

From Gene Trees to a Dated Allopolyploid Network: Insights from the Angiosperm Genus Viola (Violaceae)

(2014) Thomas Marcussen et al.   SYSTEMATIC BIOLOGY

GenPhyloData: realistic simulation of gene family evolution

(2013) Joel Sjöstrand et al.   BMC BIOINFORMATICS

Detecting and Locating Whole Genome Duplications on a Phylogeny: A Probabilistic Approach

(2013) Charles-Elie Rabier et al.   MOLECULAR BIOLOGY AND EVOLUTION

Parsimonious Inference of Hybridization in the Presence of Incomplete Lineage Sorting

(2013) Yun Yu et al.   SYSTEMATIC BIOLOGY

Statistical Inference of Allopolyploid Species Networks in the Presence of Incomplete Lineage Sorting

(2013) Graham Jones et al.   SYSTEMATIC BIOLOGY

Unified modeling of gene duplication, loss, and coalescence using a locus tree

(2012) M. D. Rasmussen et al.   GENOME RESEARCH

Ancestral polyploidy in seed plants and angiosperms

(2011) Yuannian Jiao et al.   NATURE

Recently Formed Polyploid Plants Diversify at Lower Rates

(2011) I. Mayrose et al.   SCIENCE

Inferring Species Networks from Gene Trees in High-Polyploid North American and Hawaiian Violets (Viola, Violaceae)

(2011) Thomas Marcussen et al.   SYSTEMATIC BIOLOGY

The Newick utilities: high-throughput phylogenetic tree processing in the UNIX shell

(2010) T. Junier et al.   BIOINFORMATICS

Fast Diploidization in Close Mesopolyploid Relatives of Arabidopsis

(2010) T. Mandakova et al.   PLANT CELL

The Role of Hybridization in Plant Speciation

(2009) Pamela S. Soltis et al.   Annual Review of Plant Biology

Inferring polyploid phylogenies from multiply-labeled gene trees

(2009) Martin Lott et al.   BMC EVOLUTIONARY BIOLOGY

Dating the origins of polyploidy events

(2009) Jeff J. Doyle et al.   NEW PHYTOLOGIST

The frequency of polyploid speciation in vascular plants

(2009) T. E. Wood et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reconciliation with Non-Binary Species Trees

(2008) Benjamin Vernot et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Multiple Paleopolyploidizations during the Evolution of the Compositae Reveal Parallel Patterns of Duplicate Gene Retention after Millions of Years

(2008) M. S. Barker et al.   MOLECULAR BIOLOGY AND EVOLUTION