A next generation approach to species delimitation reveals the role of hybridization in a cryptic species complex of corals

Soft corals form aragonite-precipitated columnar spiculite in mesophotic reefs

(2019) Erez Shoham et al.   Scientific Reports

Marine natural products

(2018) John W. Blunt et al.   NATURAL PRODUCT REPORTS

Reconciling species diversity in a tropical plant clade (Canarium, Burseraceae)

(2018) Sarah Federman et al.   PLoS One

Systematic Revision of Symbiodiniaceae Highlights the Antiquity and Diversity of Coral Endosymbionts

(2018) Todd C. LaJeunesse et al.   CURRENT BIOLOGY

Universal target-enrichment baits for anthozoan (Cnidaria) phylogenomics: New approaches to long-standing problems

(2017) Andrea M. Quattrini et al.   Molecular Ecology Resources

Species boundaries in the absence of morphological, ecological or geographical differentiation in the Red Sea octocoral genus Ovabunda (Alcyonacea: Xeniidae)

(2017) Catherine S. McFadden et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Coral hybridization or phenotypic variation? Genomic data reveal gene flow between Porites lobata and P. Compressa

(2017) Z.H. Forsman et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Multispecies coalescent delimits structure, not species

(2017) Jeet Sukumaran et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A genomic glance through the fog of plasticity and diversification in Pocillopora

(2017) Erika C. Johnston et al.   Scientific Reports

Higher species richness of octocorals in the upper mesophotic zone in Eilat (Gulf of Aqaba) compared to shallower reef zones

(2016) Erez Shoham et al.   CORAL REEFS

Vertical water mass structure in the North Atlantic influences the bathymetric distribution of species in the deep-sea coral genus Paramuricea

(2016) Veronica Z. Radice et al.   DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS

RAD sequencing enables unprecedented phylogenetic resolution and objective species delimitation in recalcitrant divergent taxa

(2016) Santiago Herrera et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Sinularia polydactyla (Ehrenberg, 1834) (Cnidaria, Octocorallia) re-examined, with the description of a new species

(2016) Leen P. van Ofwegen et al.   ZooKeys

Quantifying Complex Shapes: Elliptical Fourier Analysis of Octocoral Sclerites

(2016) Joseph M. Carlo et al.   BIOLOGICAL BULLETIN

Switch between Morphospecies of Pocillopora Corals

(2015) David A. Paz-García et al.   AMERICAN NATURALIST

Historical introgression among the American live oaks and the comparative nature of tests for introgression

(2015) Deren A. R. Eaton et al.   EVOLUTION

Trans-Pacific RAD-Seq population genomics confirms introgressive hybridization in Eastern Pacific Pocillopora corals

(2015) David J. Combosch et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The Symbiodinium kawagutii genome illuminates dinoflagellate gene expression and coral symbiosis

(2015) S. Lin et al.   SCIENCE

Bias in estimators of archaic admixture

(2015) Alan R. Rogers et al.   THEORETICAL POPULATION BIOLOGY

Environmental influences on the Indo–Pacific octocoralIsis hippurisLinnaeus 1758 (Alcyonacea: Isididae): genetic fixation or phenotypic plasticity?

(2015) Sonia J. Rowley et al.   PeerJ

PyRAD: assembly of de novo RADseq loci for phylogenetic analyses

(2014) Deren A. R. Eaton   BIOINFORMATICS

Speciation in Western Scrub-Jays, Haldane’s rule, and genetic clines in secondary contact

(2014) Fiona C Gowen et al.   BMC EVOLUTIONARY BIOLOGY

Genetic species delineation among branching Caribbean Porites corals

(2014) C. Prada et al.   CORAL REEFS

Use of RAD sequencing for delimiting species

(2014) E Pante et al.   HEREDITY

Species Delimitation using Genome-Wide SNP Data

(2014) Adam D. Leaché et al.   SYSTEMATIC BIOLOGY

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

(2014) Remco Bouckaert et al.   PLoS Computational Biology

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

Inferring Phylogeny and Introgression using RADseq Data: An Example from Flowering Plants (Pedicularis: Orobanchaceae)

(2013) Deren A. R. Eaton et al.   SYSTEMATIC BIOLOGY

Sinularia leptoclados (Ehrenberg, 1834) (Cnidaria: Octocorallia) re-examined

(2013) Leen van Ofwegen et al.   ZooKeys

DNA barcoding reveals the coral “laboratory-rat”, Stylophora pistillata encompasses multiple identities

(2013) Shashank Keshavmurthy et al.   Scientific Reports

Inferring Species Trees Directly from Biallelic Genetic Markers: Bypassing Gene Trees in a Full Coalescent Analysis

(2012) David Bryant et al.   MOLECULAR BIOLOGY AND EVOLUTION

jModelTest 2: more models, new heuristics and parallel computing

(2012) Diego Darriba et al.   NATURE METHODS

Soft Coral Sarcophyton (Cnidaria: Anthozoa: Octocorallia) Species Diversity and Chemotypes

(2012) Satoe Aratake et al.   PLoS One

Comparing Molecular Variation to Morphological Species Designations in the Deep-Sea Coral Narella Reveals New Insights into Seamount Coral Ranges

(2012) Amy R. Baco et al.   PLoS One

Genetic Introgression: An Integral but neglected component of speciation in birds

(2011) Frank E. Rheindt et al.   AUK

Sclerite calcification and reef-building in the fleshy octocoral genus Sinularia (Octocorallia: Alcyonacea)

(2011) M.-S. Jeng et al.   CORAL REEFS

Sexual reproduction in octocorals

(2011) SE Kahng et al.   MARINE ECOLOGY PROGRESS SERIES

Testing for Ancient Admixture between Closely Related Populations

(2011) Eric Y. Durand et al.   MOLECULAR BIOLOGY AND EVOLUTION

Fast Identification and Removal of Sequence Contamination from Genomic and Metagenomic Datasets

(2011) Robert Schmieder et al.   PLoS One

DensiTree: making sense of sets of phylogenetic trees

(2010) R. R. Bouckaert   BIOINFORMATICS

Limitations of mitochondrial gene barcoding in Octocorallia

(2010) CATHERINE S. McFADDEN et al.   Molecular Ecology Resources

Semi-permeable species boundaries in the coral genus Madracis: Introgression in a brooding coral system

(2010) P.R. Frade et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Ecomorph or Endangered Coral? DNA and Microstructure Reveal Hawaiian Species Complexes: Montipora dilatata/flabellata/turgescens & M. patula/verrilli

(2010) Zac H. Forsman et al.   PLoS One

A Draft Sequence of the Neandertal Genome

(2010) R. E. Green et al.   SCIENCE

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Shape-shifting corals: Molecular markers show morphology is evolutionarily plastic in Porites

(2009) Zac H Forsman et al.   BMC EVOLUTIONARY BIOLOGY

Molecular systematics of the speciose Indo-Pacific soft coral genus,Sinularia(Anthozoa: Octocorallia)

(2009) Catherine S. McFadden et al.   INVERTEBRATE BIOLOGY

How many kinds of sclerite? Towards a morphometric classification of gorgoniid microskeletal components

(2009) Sergio Vargas et al.   MICRON

Identifying Hybridization Events in the Presence of Coalescence via Model Selection

(2009) Laura Salter Kubatko   SYSTEMATIC BIOLOGY

Recent developments in the MAFFT multiple sequence alignment program

(2008) K. Katoh et al.   BRIEFINGS IN BIOINFORMATICS

HYBRID VIGOR IN A TROPICAL PACIFIC SOFT-CORAL COMMUNITY

(2008) Marc Slattery et al.   ECOLOGICAL MONOGRAPHS

Slow Mitochondrial COI Sequence Evolution at the Base of the Metazoan Tree and Its Implications for DNA Barcoding

(2008) Danwei Huang et al.   JOURNAL OF MOLECULAR EVOLUTION

Symbiont specificity and bleaching susceptibility among soft corals in the 1998 Great Barrier Reef mass coral bleaching event

(2008) Tamar L. Goulet et al.   MARINE BIOLOGY

Some Rare Indo-Pacific Coral Species Are Probable Hybrids

(2008) Zoe T. Richards et al.   PLoS One

DNA BARCODING: Barcoding corals: limited by interspecific divergence, not intraspecific variation

(2007) T. L. SHEARER et al.   Molecular Ecology Resources