Whole plastome sequencing reveals deep plastid divergence and cytonuclear discordance between closely related balsam poplars,Populus balsamiferaandP. trichocarpa(Salicaceae)

MICROEVOLUTIONARY PROCESSES GENERATE PHYLOGENOMIC DISCORDANCE AT ANCIENT DIVERGENCES

(2013) Jeffrey C. Oliver   EVOLUTION

A 34K SNP genotyping array forPopulus trichocarpa: Design, application to the study of natural populations and transferability to otherPopulusspecies

(2013) A. Geraldes et al.   Molecular Ecology Resources

Taller plants have lower rates of molecular evolution

(2013) Robert Lanfear et al.   Nature Communications

Ultra-barcoding in cacao (Theobroma spp.; Malvaceae) using whole chloroplast genomes and nuclear ribosomal DNA

(2012) Nolan Kane et al.   AMERICAN JOURNAL OF BOTANY

Testing hypotheses for genealogical discordance in a rainforest lizard

(2012) Sonal Singhal et al.   MOLECULAR ECOLOGY

The biogeography of mitochondrial and nuclear discordance in animals

(2012) DAVID P. L. TOEWS et al.   MOLECULAR ECOLOGY

Deep phylogeographic divergence and cytonuclear discordance in the grasshopper Oedaleus decorus

(2012) Eveline Kindler et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Genome resequencing reveals multiscale geographic structure and extensive linkage disequilibrium in the forest treePopulus trichocarpa

(2012) Gancho T. Slavov et al.   NEW PHYTOLOGIST

Pleistocene Speciation in the Genus Populus (Salicaceae)

(2012) Nicholas D. Levsen et al.   SYSTEMATIC BIOLOGY

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Deep sympatric mitochondrial divergence without reproductive isolation in the common redstartPhoenicurus phoenicurus

(2012) Silje Hogner et al.   Ecology and Evolution

Deep sympatric mtDNA divergence in the autumnal moth (Epirrita autumnata)

(2012) Kjersti S. Kvie et al.   Ecology and Evolution

Rapid Evolution of Enormous, Multichromosomal Genomes in Flowering Plant Mitochondria with Exceptionally High Mutation Rates

(2012) Daniel B. Sloan et al.   PLOS BIOLOGY

Detecting Individual Sites Subject to Episodic Diversifying Selection

(2012) Ben Murrell et al.   PLoS Genetics

A Random Effects Branch-Site Model for Detecting Episodic Diversifying Selection

(2011) Sergei L. Kosakovsky Pond et al.   MOLECULAR BIOLOGY AND EVOLUTION

Deep Mitochondrial DNA Lineage Divergences Within Alberta Populations of Dermacentor albipictus (Acari: Ixodidae) Do Not Indicate Distinct Species

(2010) Sarah S. T. Leo et al.   JOURNAL OF MEDICAL ENTOMOLOGY

The Potential Role of Androgenesis in Cytoplasmic–Nuclear Phylogenetic Discordance

(2010) Shannon M. Hedtke et al.   SYSTEMATIC BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

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

(2009) Matthew Parks et al.   BMC BIOLOGY

Looking forwards or looking backwards in avian phylogeography? A comment on Zink and Barrowclough 2008

(2009) SCOTT EDWARDS et al.   MOLECULAR ECOLOGY

Evidence of chloroplast capture in South American Nothofagus (subgenus Nothofagus, Nothofagaceae)

(2009) M. Cristina Acosta et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

jModelTest: Phylogenetic Model Averaging

(2008) D. Posada   MOLECULAR BIOLOGY AND EVOLUTION

Mitochondrial DNA under siege in avian phylogeography

(2008) ROBERT M. ZINK et al.   MOLECULAR ECOLOGY

Rates of Molecular Evolution Are Linked to Life History in Flowering Plants

(2008) S. A. Smith et al.   SCIENCE