Genomic, ecological, and morphological approaches to investigating species limits: A case study in modern taxonomy from Tropical Eastern Pacific surgeonfishes

Phylogenetics and geography of speciation in New World Halichoeres wrasses

(2018) Peter C. Wainwright et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylogenomics of pike cichlids (Cichlidae: Crenicichla ): the rapid ecological speciation of an incipient species flock

(2017) E. D. Burress et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Willet be one species or two? A genomic view of the evolutionary history ofTringa semipalmata

(2016) Jessica A. Oswald et al.   AUK

Introgression and selection shaped the evolutionary history of sympatric sister-species of coral reef fishes (genus:Haemulon)

(2016) Moisés A. Bernal et al.   MOLECULAR ECOLOGY

Improved resolution and a novel phylogeny for the Neotropical triplefin blennies (Teleostei: Tripterygiidae)

(2016) Elizabeth Christina Miller et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Tempo and mode of speciation in Holacanthus angelfishes based on RADseq markers

(2016) Juliette Tariel et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Regal phylogeography: Range-wide survey of the marine angelfish Pygoplites diacanthus reveals evolutionary partitions between the Red Sea, Indian Ocean, and Pacific Ocean

(2016) Richard R. Coleman et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Replicated divergence in cichlid radiations mirrors a major vertebrate innovation

(2016) Matthew D. McGee et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

PHYLUCE is a software package for the analysis of conserved genomic loci

(2015) Brant C. Faircloth   BIOINFORMATICS

Blinded by the bright: a lack of congruence between colour morphs, phylogeography and taxonomy for a cosmopolitan Indo-Pacific butterflyfish,Chaetodon auriga

(2015) Joseph D. DiBattista et al.   JOURNAL OF BIOGEOGRAPHY

Genomic signatures of geographic isolation and natural selection in coral reef fishes

(2015) Michelle R. Gaither et al.   MOLECULAR ECOLOGY

Skipping across the tropics: The evolutionary history of sawtail surgeonfishes (Acanthuridae: Prionurus)

(2015) William B. Ludt et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Genome-wide ultraconserved elements exhibit higher phylogenetic informativeness than traditional gene markers in percomorph fishes

(2015) Princess S. Gilbert et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

Shifting seas: the impacts of Pleistocene sea-level fluctuations on the evolution of tropical marine taxa

(2014) William B. Ludt et al.   JOURNAL OF BIOGEOGRAPHY

Genomic atolls of differentiation in coral reef fishes (Hypoplectrusspp.,Serranidae)

(2014) O. Puebla et al.   MOLECULAR ECOLOGY

Evolution of pygmy angelfishes: Recent divergences, introgression, and the usefulness of color in taxonomy

(2014) Michelle R. Gaither et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Historical biogeography of the Isthmus of Panama

(2013) Egbert G. Leigh et al.   BIOLOGICAL REVIEWS

MARSPEC: ocean climate layers for marine spatial ecology

(2013) Elizabeth J. Sbrocco et al.   ECOLOGY

After continents divide: comparative phylogeography of reef fishes from the Red Sea and Indian Ocean

(2013) Joseph D. DiBattista et al.   JOURNAL OF BIOGEOGRAPHY

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

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

Speciation in fishes

(2013) Giacomo Bernardi   MOLECULAR ECOLOGY

A Phylogenomic Perspective on the Radiation of Ray-Finned Fishes Based upon Targeted Sequencing of Ultraconserved Elements (UCEs)

(2013) Brant C. Faircloth et al.   PLoS One

Target Capture and Massively Parallel Sequencing of Ultraconserved Elements for Comparative Studies at Shallow Evolutionary Time Scales

(2013) Brian Tilston Smith et al.   SYSTEMATIC BIOLOGY

Molecular phylogeny of grunts (Teleostei, Haemulidae), with an emphasis on the ecology, evolution, and speciation history of New World species

(2012) José Tavera et al.   BMC EVOLUTIONARY BIOLOGY

Twisted sister species of pygmy angelfishes: discordance between taxonomy, coloration, and phylogenetics

(2012) Joseph D. DiBattista et al.   CORAL REEFS

The historical biogeography of coral reef fishes: global patterns of origination and dispersal

(2012) Peter F. Cowman et al.   JOURNAL OF BIOGEOGRAPHY

Not All Sequence Tags Are Created Equal: Designing and Validating Sequence Identification Tags Robust to Indels

(2012) Brant C. Faircloth et al.   PLoS One

Ultraconserved Elements Anchor Thousands of Genetic Markers Spanning Multiple Evolutionary Timescales

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

Measuring ecological niche overlap from occurrence and spatial environmental data

(2011) Olivier Broennimann et al.   GLOBAL ECOLOGY AND BIOGEOGRAPHY

A realignment of marine biogeographic provinces with particular reference to fish distributions

(2011) John C. Briggs et al.   JOURNAL OF BIOGEOGRAPHY

Evolution of a Neotropical marine fish lineage (Subfamily Chaenopsinae, Suborder Blennioidei) based on phylogenetic analysis of combined molecular and morphological data

(2011) Hsiu-Chin Lin et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Reconciling molecules and morphology: Molecular systematics and biogeography of Neotropical blennies (Acanthemblemaria)

(2011) Ron I. Eytan et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method

(2011) Dent A. Earl et al.   Conservation Genetics Resources

pegas: an R package for population genetics with an integrated-modular approach

(2010) E. Paradis   BIOINFORMATICS

Discriminant analysis of principal components: a new method for the analysis of genetically structured populations

(2010) Thibaut Jombart et al.   BMC GENETICS

Molecular phylogenetics and evolution of Holacanthus angelfishes (Pomacanthidae)

(2010) Yvette Alva-Campbell et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

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

Endemism and dispersal: comparative phylogeography of three surgeonfishes across the Hawaiian Archipelago

(2009) Jeff A. Eble et al.   MARINE BIOLOGY

Shore fishes and biogeographic subdivisions of the Tropical Eastern Pacific

(2009) DR Robertson et al.   MARINE ECOLOGY PROGRESS SERIES

Colour variation is incongruent with mitochondrial lineages: cryptic speciation and subsequent diversification in a Gulf of California reef fish (Teleostei: Blennioidei)

(2009) H-C. LIN et al.   MOLECULAR ECOLOGY

Speciation in coral-reef fishes

(2008) L. A. Rocha et al.   JOURNAL OF FISH BIOLOGY

Population genetic analyses of Hypoplectrus coral reef fishes provide evidence that local processes are operating during the early stages of marine adaptive radiations

(2008) OSCAR PUEBLA et al.   MOLECULAR ECOLOGY

Historical biogeography and speciation in the reef fish genus Haemulon (Teleostei: Haemulidae)

(2008) Luiz A. Rocha et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Molecular ecology, speciation, and evolution of the reef fish genus Anisotremus

(2008) Giacomo Bernardi et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION