The comparative biogeography of Philippine geckos challenges predictions from a paradigm of climate‐driven vicariant diversification across an island archipelago

Minor allele frequency thresholds strongly affect population structure inference with genomic datasets

(2019) Ethan Linck et al.   Molecular Ecology Resources

Marginal Likelihoods in Phylogenetics: A Review of Methods and Applications

(2019) Jamie R Oaks et al.   SYSTEMATIC BIOLOGY

Full Bayesian Comparative Phylogeography from Genomic Data

(2018) Jamie R Oaks   SYSTEMATIC BIOLOGY

Spotlight on islands: on the origin and diversification of an ancient lineage of the Italian wall lizard Podarcis siculus in the western Pontine Islands

(2018) Gabriele Senczuk et al.   Scientific Reports

A phylogenetic taxonomy of the Cyrtodactylus peguensis group (Reptilia: Squamata: Gekkonidae) with descriptions of two new species from Myanmar

(2018) L. Lee Grismer et al.   PeerJ

Linking micro- and macroevolutionary perspectives to evaluate the role of Quaternary sea-level oscillations in island diversification

(2017) Anna Papadopoulou et al.   EVOLUTION

Twelve new species of Cyrtodactylus Gray (Squamata: Gekkonidae) from isolated limestone habitats in east-central and southern Myanmar demonstrate high localized diversity and unprecedented microendemism

(2017) L Lee Grismer et al.   ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

A Practical Sequential Stopping Rule for High-Dimensional Markov Chain Monte Carlo

(2016) Lei Gong et al.   JOURNAL OF COMPUTATIONAL AND GRAPHICAL STATISTICS

Genomic tests of the species-pump hypothesis: Recent island connectivity cycles drive population divergence but not speciation in Caribbean crickets across the Virgin Islands

(2015) Anna Papadopoulou et al.   EVOLUTION

Similarity thresholds used in DNA sequence assembly from short reads can reduce the comparability of population histories across species

(2015) Michael G. Harvey et al.   PeerJ

Quartet Inference from SNP Data Under the Coalescent Model

(2014) Julia Chifman et al.   BIOINFORMATICS

An improved approximate-Bayesian model-choice method for estimating shared evolutionary history

(2014) Jamie R Oaks   BMC EVOLUTIONARY BIOLOGY

Critically endangered island endemic or peripheral population of a widespread species? Conservation genetics of Kikuchi's gecko and the global challenge of protecting peripheral oceanic island endemic vertebrates

(2014) Cameron D. Siler et al.   DIVERSITY AND DISTRIBUTIONS

CLIMATE-DRIVEN DIVERSIFICATION AND PLEISTOCENE REFUGIA IN PHILIPPINE BIRDS: EVIDENCE FROM PHYLOGEOGRAPHIC STRUCTURE AND PALEOENVIRONMENTAL NICHE MODELING

(2014) Peter A. Hosner et al.   EVOLUTION

Implications of uniformly distributed, empirically informed priors for phylogeographical model selection: A reply to Hickerson et al.

(2014) Jamie R. Oaks et al.   EVOLUTION

Detecting Concerted Demographic Response across Community Assemblages Using Hierarchical Approximate Bayesian Computation

(2014) Yvonne L. Chan et al.   MOLECULAR BIOLOGY AND EVOLUTION

The drivers of tropical speciation

(2014) Brian Tilston Smith et al.   NATURE

Evolutionary Processes of Diversification in a Model Island Archipelago

(2013) Rafe M. Brown et al.   Annual Review of Ecology Evolution and Systematics

MTML-msBayes: Approximate Bayesian comparative phylogeographic inference from multiple taxa and multiple loci with rate heterogeneity

(2013) Wen Huang et al.   BMC BIOINFORMATICS

RECOMMENDATIONS FOR USING MSBAYES TO INCORPORATE UNCERTAINTY IN SELECTING AN ABC MODEL PRIOR: A RESPONSE TO OAKS ET AL.

(2013) Michael J. Hickerson et al.   EVOLUTION

Water barriers and intra-island isolation contribute to diversification in the insularAethopygasunbirds (Aves: Nectariniidae)

(2013) Peter A. Hosner et al.   JOURNAL OF BIOGEOGRAPHY

Spotted stream frog diversification at the Australasian faunal zone interface, mainland versus island comparisons, and a test of the Philippine ‘dual-umbilicus’ hypothesis

(2013) Rafe M. Brown et al.   JOURNAL OF BIOGEOGRAPHY

marmap: A Package for Importing, Plotting and Analyzing Bathymetric and Topographic Data in R

(2013) Eric Pante et al.   PLoS One

Testing the ‘Pleistocene species pump’ in alpine habitats: lineage diversification of flightless ground beetles (Coleoptera: Carabidae: Nebria) in relation to altitudinal zonation

(2012) SEAN D. SCHOVILLE et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Reconstructing Community Assembly in Time and Space Reveals Enemy Escape in a Western Palearctic Insect Community

(2012) Graham N. Stone et al.   CURRENT BIOLOGY

EVIDENCE FOR CLIMATE-DRIVEN DIVERSIFICATION? A CAUTION FOR INTERPRETING ABC INFERENCES OF SIMULTANEOUS HISTORICAL EVENTS

(2012) Jamie R. Oaks et al.   EVOLUTION

Stochastic faunal exchanges drive diversification in widespread Wallacean and Pacific island lizards (Squamata: Scincidae:Lamprolepis smaragdina)

(2012) Charles W. Linkem et al.   JOURNAL OF BIOGEOGRAPHY

Did geckos ride the Palawan raft to the Philippines?

(2012) Cameron D. Siler et al.   JOURNAL OF BIOGEOGRAPHY

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

Multiplexed shotgun genotyping for rapid and efficient genetic mapping

(2011) P. Andolfatto et al.   GENOME RESEARCH

A New Gekko from Sibuyan Island, Central Philippines

(2011) Rafe M. Brown et al.   HERPETOLOGICA

Philippine Bent-Toed Geckos of the Cyrtodactylus agusanensis Complex: Multilocus Phylogeny, Morphological Diversity, and Descriptions of Three New Species

(2011) Luke J. Welton et al.   HERPETOLOGICAL MONOGRAPHS

Integrating statistical genetic and geospatial methods brings new power to phylogeography

(2011) Lauren M. Chan et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylogeny of Philippine slender skinks (Scincidae: Brachymeles) reveals underestimated species diversity, complex biogeographical relationships, and cryptic patterns of lineage diversification

(2011) Cameron D. Siler et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Molecular systematics of the Philippine forest skinks (Squamata: Scincidae: Sphenomorphus): testing morphological hypotheses of interspecific relationships

(2011) CHARLES W. LINKEM et al.   ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Niche Conservatism Drives Elevational Diversity Patterns in Appalachian Salamanders

(2010) Kenneth H. Kozak et al.   AMERICAN NATURALIST

Coming to America: multiple origins of New World geckos

(2010) T. GAMBLE et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Species boundaries and cryptic lineage diversity in a Philippine forest skink complex (Reptilia; Squamata; Scincidae: Lygosominae)

(2010) Charles W. Linkem et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylogeny and biogeography of Philippine bent-toed geckos (Gekkonidae: Cyrtodactylus) contradict a prevailing model of Pleistocene diversification

(2010) Cameron D. Siler et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

An Ancient Origin for the Enigmatic Flat-Headed Frogs (Bombinatoridae: Barbourula) from the Islands of Southeast Asia

(2010) David C. Blackburn et al.   PLoS One

Two pulses of diversification across the Isthmus of Tehuantepec in a montane Mexican bird fauna

(2010) B. R. Barber et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Are the Northern Andes a species pump for Neotropical birds? Phylogenetics and biogeography of a clade of Neotropical tanagers (Aves: Thraupini)

(2009) Raul E. Sedano et al.   JOURNAL OF BIOGEOGRAPHY

Phylogeny of Gekko from the Northern Philippines, and Description of a New Species from Calayan Island

(2009) Rafe M. Brown et al.   JOURNAL OF HERPETOLOGY

The role of repeated sea-level fluctuations in the generation of shrew (Soricidae: Crocidura) diversity in the Philippine Archipelago

(2009) Jacob A. Esselstyn et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Adaptation and diversification on islands

(2009) Jonathan B. Losos et al.   NATURE

Madagascar as a model region of species diversification

(2009) Miguel Vences et al.   TRENDS IN ECOLOGY & EVOLUTION

Integrating paleoecology and genetics of bird populations in two sky island archipelagos

(2008) John E McCormack et al.   BMC BIOLOGY

A New Species ofDesmalopex(Pteropodidae) from the Philippines, with a Phylogenetic Analysis of the Pteropodini

(2008) Jacob A. Esselstyn et al.   JOURNAL OF MAMMALOGY

The West Indies as a laboratory of biogeography and evolution

(2007) R. Ricklefs et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES