Incomplete reproductive isolation and low genetic differentiation despite floral divergence across varying geographic scales in Castilleja

Geographic Mosaics of Fly Pollinators With Divergent Color Preferences Drive Landscape-Scale Structuring of Flower Color in Daisy Communities

(2021) Allan G. Ellis et al.   Frontiers in Plant Science

Phylogenomic conflict coincides with rapid morphological innovation

(2021) Caroline Parins-Fukuchi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The role of sensory drive in floral evolution

(2020) Matthew H. Koski   NEW PHYTOLOGIST

Performing highly efficient genome scans for local adaptation with R package pcadapt version 4

(2020) Florian Privé et al.   MOLECULAR BIOLOGY AND EVOLUTION

Strategies for reducing per‐sample costs in target capture sequencing for phylogenomics and population genomics in plants

(2020) Haley Hale et al.   Applications in Plant Sciences

ASTRAL-Pro: Quartet-Based Species-Tree Inference despite Paralogy

(2020) Chao Zhang et al.   MOLECULAR BIOLOGY AND EVOLUTION

From pollen dispersal to plant diversification: genetic consequences of pollination mode

(2020) Carolyn A. Wessinger   NEW PHYTOLOGIST

Hawkmoth Pollination Facilitates Long-distance Pollen Dispersal and Reduces Isolation Across a Gradient of Land-use Change

(2019) Krissa A. Skogen et al.   ANNALS OF THE MISSOURI BOTANICAL GARDEN

Genomic Identity of White Oak Species in an Eastern North American Syngameon

(2019) Andrew L. Hipp et al.   ANNALS OF THE MISSOURI BOTANICAL GARDEN

The oak syngameon: more than the sum of its parts

(2019) Charles H. Cannon et al.   NEW PHYTOLOGIST

One thousand plant transcriptomes and the phylogenomics of green plants

(2019)   NATURE

ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees

(2018) Chao Zhang et al.   BMC BIOINFORMATICS

TreeShrink: fast and accurate detection of outlier long branches in collections of phylogenetic trees

(2018) Uyen Mai et al.   BMC GENOMICS

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms

(2018) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Incongruence in molecular species delimitation schemes: What to do when adding more data is difficult

(2018) Sarah J. Jacobs et al.   MOLECULAR ECOLOGY

DiscoVista: Interpretable visualizations of gene tree discordance

(2018) Erfan Sayyari et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Discordance between genomic divergence and phenotypic variation in a rapidly evolving avian genus ( Motacilla )

(2018) Rebecca B. Harris et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Bridging the micro- and macroevolutionary levels in phylogenomics: Hyb-Seq solves relationships from populations to species and above

(2018) Tamara Villaverde et al.   NEW PHYTOLOGIST

HyDe: A Python Package for Genome-Scale Hybridization Detection

(2018) Paul D Blischak et al.   SYSTEMATIC BIOLOGY

Finding Evolutionary Processes Hidden in Cryptic Species

(2018) Torsten H. Struck et al.   TRENDS IN ECOLOGY & EVOLUTION

Multi-allele species reconstruction using ASTRAL

(2018) Maryam Rabiee et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The geographic mosaic of coevolution in mutualistic networks

(2018) Lucas P. Medeiros et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Universal Probe Set for Targeted Sequencing of 353 Nuclear Genes from Any Flowering Plant Designed Using k-Medoids Clustering

(2018) Matthew G Johnson et al.   SYSTEMATIC BIOLOGY

An untold story in biology: the historical continuity of evolutionary ideas of Muslim scholars from the 8th century to Darwin’s time

(2017) Aamina H. Malik et al.   JOURNAL OF BIOLOGICAL EDUCATION

Why background colour matters to bees and flowers

(2017) Zoë Bukovac et al.   JOURNAL OF COMPARATIVE PHYSIOLOGY A-NEUROETHOLOGY SENSORY NEURAL AND BEHAVIORAL PHYSIOLOGY

UFBoot2: Improving the Ultrafast Bootstrap Approximation

(2017) Diep Thi Hoang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Real-time divergent evolution in plants driven by pollinators

(2017) Daniel D. L. Gervasi et al.   Nature Communications

Transitions between phases of genomic differentiation during stick-insect speciation

(2017) Rüdiger Riesch et al.   Nature Ecology & Evolution

Fast Coalescent-Based Computation of Local Branch Support from Quartet Frequencies

(2016) Erfan Sayyari et al.   MOLECULAR BIOLOGY AND EVOLUTION

Geographic cline analysis as a tool for studying genome-wide variation: a case study of pollinator-mediated divergence in a monkeyflower

(2016) Sean Stankowski et al.   MOLECULAR ECOLOGY

pcadapt: anRpackage to perform genome scans for selection based on principal component analysis

(2016) Keurcien Luu et al.   Molecular Ecology Resources

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

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

Strong premating reproductive isolation drives incipient speciation inMimulus aurantiacus

(2015) James M. Sobel et al.   EVOLUTION

Differentially expressed genes match bill morphology and plumage despite largely undifferentiated genomes in a Holarctic songbird

(2015) Nicholas A. Mason et al.   MOLECULAR ECOLOGY

Targeted capture in evolutionary and ecological genomics

(2015) Matthew R. Jones et al.   MOLECULAR ECOLOGY

Is gene flow the most important evolutionary force in plants?

(2014) Norman C. Ellstrand   AMERICAN JOURNAL OF BOTANY

The Cost of Reinforcement: Selection on Flower Color in Allopatric Populations of Phlox drummondii

(2014) Robin Hopkins et al.   AMERICAN NATURALIST

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Context-dependent reproductive isolation mediated by floral scent and color

(2014) Mascha Bischoff et al.   EVOLUTION

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genomic divergence in a ring species complex

(2014) Miguel Alcaide et al.   NATURE

The Chromosome Counts Database (CCDB) - a community resource of plant chromosome numbers

(2014) Anna Rice et al.   NEW PHYTOLOGIST

Genetic Connectivity of the Moth Pollinated Tree Glionnetia sericea in a Highly Fragmented Habitat

(2014) Aline Finger et al.   PLoS One

Floral specialization and angiosperm diversity: phenotypic divergence, fitness trade-offs and realized pollination accuracy

(2014) W. Scott Armbruster   AoB Plants

Pollinator shifts and the evolution of spur length in the moth-pollinated orchid Platanthera bifolia

(2013) Elin Boberg et al.   ANNALS OF BOTANY

Gower distance-based multivariate control charts for a mixture of continuous and categorical variables

(2013) Gulanbaier Tuerhong et al.   EXPERT SYSTEMS WITH APPLICATIONS

Ultrafast Approximation for Phylogenetic Bootstrap

(2013) B. Q. Minh et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

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

Unlocking the vault: next-generation museum population genomics

(2013) Ke Bi et al.   MOLECULAR ECOLOGY

Diversification through multitrait evolution in a coevolving interaction

(2013) J. N. Thompson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Pollinator-mediated evolution of floral signals

(2013) Florian P. Schiestl et al.   TRENDS IN ECOLOGY & EVOLUTION

Characterization of Microsatellite Loci inCastilleja sessilifloraand Transferability to 24CastillejaSpecies (Orobanchaceae)

(2013) Jeremie B. Fant et al.   Applications in Plant Sciences

Ancient Admixture in Human History

(2012) N. Patterson et al.   GENETICS

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Pollinator-Mediated Selection on Flower Color Allele Drives Reinforcement

(2012) R. Hopkins et al.   SCIENCE

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

MOLECULAR SIGNATURES OF SELECTION ON REPRODUCTIVE CHARACTER DISPLACEMENT OF FLOWER COLOR IN PHLOX DRUMMONDII

(2011) Robin Hopkins et al.   EVOLUTION

Additive effects of herbivory, nectar robbing and seed predation on male and female fitness estimates of the host plant Ipomopsis aggregata

(2011) Rebecca E. Irwin et al.   OECOLOGIA

Sympatric Sister Species of Californian Antirrhinum and Their Transiently Specialized Pollinators

(2010) Ryan K. Oyama et al.   AMERICAN MIDLAND NATURALIST

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

(2010) T. Junier et al.   BIOINFORMATICS

Does character displacement initiate speciation? Evidence of reduced gene flow between populations experiencing divergent selection

(2010) A. M. RICE et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Contrasting effects of hemiparasites on ecosystem processes: can positive litter effects offset the negative effects of parasitism?

(2010) Marko J. Spasojevic et al.   OECOLOGIA

The pollination niche and its role in the diversification and maintenance of the southern African flora

(2010) S. D. Johnson   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Phylogenetic Classification of Subtribe Castillejinae (Orobanchaceae)

(2010) David C. Tank et al.   SYSTEMATIC BOTANY

Tangled trios?: Characterizing a hybrid zone in Castilleja (Orobanchaceae)

(2009) Erika I. Hersch-Green et al.   AMERICAN JOURNAL OF BOTANY

The Role of Animal Pollination in Plant Speciation: Integrating Ecology, Geography, and Genetics

(2009) Kathleen M. Kay et al.   Annual Review of Ecology Evolution and Systematics

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

Genetics and ecological speciation

(2009) D. Schluter et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evidence for Ecological Speciation and Its Alternative

(2009) D. Schluter   SCIENCE

Gene flow and species delimitation

(2009) Rémy J. Petit et al.   TRENDS IN ECOLOGY & EVOLUTION

From annuals to perennials: phylogeny of subtribe Castillejinae (Orobanchaceae)

(2008) David C. Tank et al.   AMERICAN JOURNAL OF BOTANY

Evolutionary Transitions in Floral Color

(2008) Mark D. Rausher   INTERNATIONAL JOURNAL OF PLANT SCIENCES