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

Female preference for male color is necessary and sufficient for assortative mating in 2 cichlid sister species

(2014) O. M. Selz et al.   BEHAVIORAL ECOLOGY

Phylogeography of the manybar goatfish, Parupeneus multifasciatus, reveals isolation of the Hawaiian Archipelago and a cryptic species in the Marquesas Islands

(2014) Zoltán Szabó et al.   BULLETIN OF MARINE SCIENCE

Phylogeography unplugged: comparative surveys in the genomic era

(2014) Brian W Bowen et al.   BULLETIN OF MARINE SCIENCE

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

(2014) O. Puebla et al.   MOLECULAR ECOLOGY

Recent novel approaches for population genomics data analysis

(2014) Kimberly R. Andrews 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

dDocent: a RADseq, variant-calling pipeline designed for population genomics of non-model organisms

(2014) Jonathan B. Puritz et al.   PeerJ

Cleaning up the biogeography of Labroides dimidiatus using phylogenetics and morphometrics

(2013) C. A. Sims et al.   CORAL REEFS

Origins of species richness in the Indo-Malay-Philippine biodiversity hotspot: evidence for the centre of overlap hypothesis

(2013) Michelle R. Gaither et al.   JOURNAL OF BIOGEOGRAPHY

Marine shelf habitat: biogeography and evolution

(2013) John C. Briggs et al.   JOURNAL OF BIOGEOGRAPHY

A multi-locus timetree of surgeonfishes (Acanthuridae, Percomorpha), with revised family taxonomy

(2013) Laurie Sorenson et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Long prereproductive selection and divergence by depth in a Caribbean candelabrum coral

(2013) C. Prada et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The origins of tropical marine biodiversity

(2013) Brian W. Bowen et al.   TRENDS IN ECOLOGY & EVOLUTION

ezRAD: a simplified method for genomic genotyping in non-model organisms

(2013) Robert J. Toonen et al.   PeerJ

GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research--an update

(2012) R. Peakall et al.   BIOINFORMATICS

Patterns and processes in the evolutionary history of parrotfishes (Family Labridae)

(2012) John. H. Choat et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

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

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

Living in the Past: Phylogeography and Population Histories of Indo-Pacific Wrasses (Genus Halichoeres) in Shallow Lagoons versus Outer Reef Slopes

(2012) William B. Ludt et al.   PLoS One

Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species

(2012) Brant K. Peterson et al.   PLoS One

PGDSpider: an automated data conversion tool for connecting population genetics and genomics programs

(2011) H. E. L. Lischer et al.   BIOINFORMATICS

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

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

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Diversification of sympatric broadcast-spawning limpets (Cellana spp.) within the Hawaiian archipelago

(2011) CHRISTOPHER E. BIRD et al.   MOLECULAR ECOLOGY

Applications of next-generation sequencing to phylogeography and phylogenetics

(2011) John E. McCormack et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Genome-wide genetic marker discovery and genotyping using next-generation sequencing

(2011) John W. Davey et al.   NATURE REVIEWS GENETICS

Genome-wide patterns of divergence during speciation: the lake whitefish case study

(2011) S. Renaut et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Divergence hitchhiking and the spread of genomic isolation during ecological speciation-with-gene-flow

(2011) S. Via   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

High Connectivity in the Deepwater Snapper Pristipomoides filamentosus (Lutjanidae) across the Indo-Pacific with Isolation of the Hawaiian Archipelago

(2011) Michelle R. Gaither et al.   PLoS One

Pairing dynamics and the origin of species

(2011) O. Puebla et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

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

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

Stacks : Building and Genotyping Loci De Novo From Short-Read Sequences

(2011) Julian M. Catchen et al.   G3-Genes Genomes Genetics

Origins, ages and population histories: comparative phylogeography of endemic Hawaiian butterflyfishes (genus Chaetodon)

(2010) Matthew T. Craig et al.   JOURNAL OF BIOGEOGRAPHY

Molecular phylogenetics of moray eels (Muraenidae) demonstrates multiple origins of a shell-crushing jaw (Gymnomuraena, Echidna) and multiple colonizations of the Atlantic Ocean

(2010) Joshua S. Reece et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Widespread genomic divergence during sympatric speciation

(2010) A. P. Michel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Population Genomics of Parallel Adaptation in Threespine Stickleback using Sequenced RAD Tags

(2010) Paul A. Hohenlohe et al.   PLoS Genetics

DnaSP v5: a software for comprehensive analysis of DNA polymorphism data

(2009) P. Librado et al.   BIOINFORMATICS

Assortative mating among Lake Malawi cichlid fish populations is not simply predictable from male nuptial colour

(2009) Jonatan Blais et al.   BMC EVOLUTIONARY BIOLOGY

Genetic evaluation of marine biogeographical barriers: perspectives from two widespread Indo-Pacific snappers (Lutjanus kasmira and Lutjanus fulvus)

(2009) Michelle R. Gaither et al.   JOURNAL OF BIOGEOGRAPHY

Divergent selection and heterogeneous genomic divergence

(2009) PATRIK NOSIL et al.   MOLECULAR ECOLOGY

Sequential cladogenesis of the reef fish Pomacentrus moluccensis (Pomacentridae) supports the peripheral origin of marine biodiversity in the Indo-Australian archipelago

(2009) Joshua Drew et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

High molecular diversity in the rhodopsin gene in closely related goby fishes: A role for visual pigments in adaptive speciation?

(2009) Maarten H.D. Larmuseau et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

A Fish Eye Out of Water: Ten Visual Opsins in the Four-Eyed Fish, Anableps anableps

(2009) Gregory L. Owens et al.   PLoS One

Natural selection in action during speciation

(2009) S. Via   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evidence for Ecological Speciation and Its Alternative

(2009) D. Schluter   SCIENCE

The Great American Schism: Divergence of Marine Organisms After the Rise of the Central American Isthmus

(2008) H.A. Lessios   Annual Review of Ecology Evolution and Systematics

A Genome-Scan Method to Identify Selected Loci Appropriate for Both Dominant and Codominant Markers: A Bayesian Perspective

(2008) M. Foll et al.   GENETICS

A review of the Indo-Pacific bonefishes of the Albula argentea complex, with a description of a new species

(2008) Koichi Hidaka et al.   ICHTHYOLOGICAL RESEARCH

jModelTest: Phylogenetic Model Averaging

(2008) D. Posada   MOLECULAR BIOLOGY AND EVOLUTION

Global phylogeography and seascape genetics of the lemon sharks (genusNegaprion)

(2008) J. K. SCHULTZ et al.   MOLECULAR ECOLOGY

genepop’007: a complete re-implementation of the genepop software for Windows and Linux

(2007) FRANÇOIS ROUSSET   Molecular Ecology Resources