The Compositae Tree of Life in the age of phylogenomics

The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution

(2017) Hélène Badouin et al.   NATURE

Genome assembly with in vitro proximity ligation data and whole-genome triplication in lettuce

(2017) Sebastian Reyes-Chin-Wo et al.   Nature Communications

Most Compositae (Asteraceae) are descendants of a paleohexaploid and all share a paleotetraploid ancestor with the Calyceraceae

(2016) Michael S. Barker et al.   AMERICAN JOURNAL OF BOTANY

Multiple Polyploidization Events across Asteraceae with Two Nested Events in the Early History Revealed by Nuclear Phylogenomics

(2016) Chien-Hsun Huang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Implementing and testing the multispecies coalescent model: A valuable paradigm for phylogenomics

(2016) Scott V. Edwards et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Macroevolutionary dynamics in the early diversification of Asteraceae

(2016) Jose L. Panero et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The gene tree delusion

(2016) Mark S. Springer et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Using nuclear genes to reconstruct angiosperm phylogeny at the species level: A case study with Brassicaceae species

(2016) Liming Cai et al.   Journal of Systematics and Evolution

The genome sequence of the outbreeding globe artichoke constructed de novo incorporating a phase-aware low-pass sequencing strategy of F1 progeny

(2016) Davide Scaglione et al.   Scientific Reports

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

(2015) Siavash Mirarab et al.   BIOINFORMATICS

Analysis of phylogenomic datasets reveals conflict, concordance, and gene duplications with examples from animals and plants

(2015) Stephen A Smith et al.   BMC EVOLUTIONARY BIOLOGY

Avoiding Missing Data Biases in Phylogenomic Inference: An Empirical Study in the Landfowl (Aves: Galliformes)

(2015) Peter A. Hosner et al.   MOLECULAR BIOLOGY AND EVOLUTION

Recent assembly of the global herbaceous flora: evidence from the paper daisies (Asteraceae: Gnaphalieae)

(2015) Ze-Long Nie et al.   NEW PHYTOLOGIST

Early evolution of the angiosperm clade Asteraceae in the Cretaceous of Antarctica

(2015) Viviana D. Barreda et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

On the Robustness to Gene Tree Estimation Error (or lack thereof) of Coalescent-Based Species Tree Methods

(2015) Sebastien Roch et al.   SYSTEMATIC BIOLOGY

Systematics and Evolution of Syncephaly in American Vernonieae (Asteraceae) with Emphasis on the Brazilian Subtribe Lychnophorinae

(2015) Benoît Loeuille et al.   SYSTEMATIC BOTANY

Coalescent methods for estimating species trees from phylogenomic data

(2015) Liang Liu et al.   Journal of Systematics and Evolution

A worldwide phylogenetic classification of the Poaceae (Gramineae)

(2015) Robert J. SORENG et al.   Journal of Systematics and Evolution

Using nuclear gene data for plant phylogenetics: Progress and prospects II. Next-gen approaches

(2015) Elizabeth A. Zimmer et al.   Journal of Systematics and Evolution

Chloroplast phylogenomics resolves key relationships in ferns

(2015) Jin-Mei Lu et al.   Journal of Systematics and Evolution

Using phylogenomics to resolve mega-families: An example from Compositae

(2015) Jennifer R. Mandel et al.   Journal of Systematics and Evolution

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

Phylogenetic analysis at deep timescales: Unreliable gene trees, bypassed hidden support, and the coalescence/concatalescence conundrum

(2014) John Gatesy et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

De Novo Genome Assembly of the Economically Important Weed Horseweed Using Integrated Data from Multiple Sequencing Platforms

(2014) Y. Peng et al.   PLANT PHYSIOLOGY

Statistical binning enables an accurate coalescent-based estimation of the avian tree

(2014) S. Mirarab et al.   SCIENCE

A Target Enrichment Method for Gathering Phylogenetic Information from Hundreds of Loci: An Example from the Compositae

(2014) Jennifer R. Mandel et al.   Applications in Plant Sciences

Genomics of Compositae weeds: EST libraries, microarrays, and evidence of introgression

(2011) Zhao Lai et al.   AMERICAN JOURNAL OF BOTANY

PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating

(2009) Nicolas Lartillot et al.   BIOINFORMATICS

Crop domestication in the Compositae: a family-wide trait assessment

(2008) Hannes Dempewolf et al.   GENETIC RESOURCES AND CROP EVOLUTION

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