Spatiotemporal reconstruction of theAquilegiarapid radiation through next-generation sequencing of rapidly evolving cpDNA regions

Quality and quantity of data recovered from massively parallel sequencing: Examples in Asparagales and Poaceae

(2012) P. Roxanne Steele et al.   AMERICAN JOURNAL OF BOTANY

Separating the wheat from the chaff: mitigating the effects of noise in a plastome phylogenomic data set from Pinus L. (Pinaceae)

(2012) Matthew Parks et al.   BMC EVOLUTIONARY BIOLOGY

Insights into phylogeny, sex function and age of Fragaria based on whole chloroplast genome sequencing

(2012) Wambui Njuguna et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Anchored Hybrid Enrichment for Massively High-Throughput Phylogenomics

(2012) Alan R. Lemmon et al.   SYSTEMATIC BIOLOGY

Ultraconserved Elements Anchor Thousands of Genetic Markers Spanning Multiple Evolutionary Timescales

(2012) Brant C. Faircloth et al.   SYSTEMATIC BIOLOGY

Biodiversity assessment: State-of-the-art techniques in phylogenomics and species identification

(2011) P. R. Steele et al.   AMERICAN JOURNAL OF BOTANY

Navigating the tip of the genomic iceberg: Next-generation sequencing for plant systematics

(2011) Shannon C. K. Straub et al.   AMERICAN JOURNAL OF BOTANY

A next-generation sequencing method for overcoming the multiple gene copy problem in polyploid phylogenetics, applied to Poa grasses

(2011) Philippa C Griffin et al.   BMC BIOLOGY

Targeted Amplicon Sequencing (TAS): A Scalable Next-Gen Approach to Multilocus, Multitaxa Phylogenetics

(2011) Seth M. Bybee et al.   Genome Biology and Evolution

Plant molecular phylogeography in China and adjacent regions: Tracing the genetic imprints of Quaternary climate and environmental change in the world’s most diverse temperate flora

(2011) Ying-Xiong Qiu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

High-Throughput Sequencing of Six Bamboo Chloroplast Genomes: Phylogenetic Implications for Temperate Woody Bamboos (Poaceae: Bambusoideae)

(2011) Yun-Jie Zhang et al.   PLoS One

DNA Damage in Plant Herbarium Tissue

(2011) Martijn Staats et al.   PLoS One

Contemporaneous and recent radiations of the world's major succulent plant lineages

(2011) M. Arakaki et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The age and diversification of the angiosperms re-revisited

(2010) Charles D. Bell et al.   AMERICAN JOURNAL OF BOTANY

Genomic tools development for Aquilegia: construction of a BAC-based physical map

(2010) Guang-Chen Fang et al.   BMC GENOMICS

Comparative Chloroplast Genomics Reveals the Evolution of Pinaceae Genera and Subfamilies

(2010) Ching-Ping Lin et al.   Genome Biology and Evolution

Population resequencing reveals local adaptation of Arabidopsis lyrata to serpentine soils

(2010) Thomas L Turner et al.   NATURE GENETICS

Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection

(2010) Hon-Ming Lam et al.   NATURE GENETICS

Aquilegia as a model system for the evolution and ecology of petals

(2010) E. M. Kramer et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Within and between Whorls: Comparative Transcriptional Profiling of Aquilegia and Arabidopsis

(2010) Claudia Voelckel et al.   PLoS One

Species Delimitation under the General Lineage Concept: An Empirical Example Using Wild North American Hops (Cannabaceae: Humulus lupulus)

(2010) Patrick A. Reeves et al.   SYSTEMATIC BIOLOGY

Plastid genome sequencing, comparative genomics, and phylogenomics: Current status and prospects

(2010) Lei GAO et al.   Journal of Systematics and Evolution

Aquilegia: A New Model for Plant Development, Ecology, and Evolution

(2009) Elena M. Kramer   Annual Review of Plant Biology

Increasing phylogenetic resolution at low taxonomic levels using massively parallel sequencing of chloroplast genomes

(2009) Matthew Parks et al.   BMC BIOLOGY

On the genesis of the plant population in the Alps: New or critical aspects

(2009) Paul Ozenda   COMPTES RENDUS BIOLOGIES

Glacial refugia influence plant diversity patterns in the Mediterranean Basin

(2009) Frédéric Médail et al.   JOURNAL OF BIOGEOGRAPHY

Haplotype richness in refugial areas: phylogeographical structure of Saxifraga callosa

(2009) F. Grassi et al.   JOURNAL OF PLANT RESEARCH

Sequencing technologies — the next generation

(2009) Michael L. Metzker   NATURE REVIEWS GENETICS

Phylogeny and classification of Ranunculales: Evidence from four molecular loci and morphological data

(2009) Wei Wang et al.   PERSPECTIVES IN PLANT ECOLOGY EVOLUTION AND SYSTEMATICS

Asian relationships of the flora of the European Alps

(2009) Joachim W. Kadereit et al.   Plant Ecology & Diversity

Extended phylogeny of Aquilegia: the biogeographical and ecological patterns of two simultaneous but contrasting radiations

(2009) Jesús M. Bastida et al.   PLANT SYSTEMATICS AND EVOLUTION

Accurate Inference of Subtle Population Structure (and Other Genetic Discontinuities) Using Principal Coordinates

(2009) Patrick A. Reeves et al.   PLoS One

Adaptive radiations: From field to genomic studies

(2009) S. A. Hodges et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rosid radiation and the rapid rise of angiosperm-dominated forests

(2009) H. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenetic Inference Using Whole Genomes

(2008) Bruce Rannala et al.   Annual Review of Genomics and Human Genetics

Characterizing positive and negative selection and their phylogenetic effects

(2008) Steven E. Massey et al.   GENE

Interpretation of the last-glacial vegetation of eastern-central Europe using modern analogues from southern Siberia

(2008) Petr Kuneš et al.   JOURNAL OF BIOGEOGRAPHY

Reticulate or tree-like chloroplast DNA evolution in Sileneae (Caryophyllaceae)?

(2008) Per Erixon et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylogenies without roots? A plea for the use of vouchers in molecular phylogenetic studies

(2008) F. Pleijel et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Parallel tagged sequencing on the 454 platform

(2008) Matthias Meyer et al.   Nature Protocols

Accounting for Phylogenetic Uncertainty in Biogeography: A Bayesian Approach to Dispersal-Vicariance Analysis of the Thrushes (Aves: Turdus)

(2008) Johan A. A. Nylander et al.   SYSTEMATIC BIOLOGY

Resolving an Ancient, Rapid Radiation in Saxifragales

(2008) Shuguang Jian et al.   SYSTEMATIC BIOLOGY

Maximum Likelihood Inference of Geographic Range Evolution by Dispersal, Local Extinction, and Cladogenesis

(2008) Richard H. Ree et al.   SYSTEMATIC BIOLOGY

Ancient Rapid Radiations of Insects: Challenges for Phylogenetic Analysis

(2007) James B. Whitfield et al.   Annual Review of Entomology