Integrating coalescent species delimitation with analysis of host specificity reveals extensive cryptic diversity despite minimal mitochondrial divergence in the malaria parasite genus Leucocytozoon

Phylogenomics and species delimitation of a complex radiation of Neotropical suboscine birds ( Pachyramphus )

(2018) Lukas J. Musher et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Embracing Colonizations: A New Paradigm for Species Association Dynamics

(2018) Sören Nylin et al.   TRENDS IN ECOLOGY & EVOLUTION

Vector species-specific association between natural Wolbachia infections and avian malaria in black fly populations

(2018) Luke Woodford et al.   Scientific Reports

The polyphyly of Plasmodium : comprehensive phylogenetic analyses of the malaria parasites (order Haemosporida) reveal widespread taxonomic conflict

(2018) Spencer C. Galen et al.   Royal Society Open Science

Experimental evidence for hybridization of closely related lineages in Plasmodium relictum

(2017) Vaidas Palinauskas et al.   MOLECULAR AND BIOCHEMICAL PARASITOLOGY

Integrating phylogenetic and ecological distances reveals new insights into parasite host specificity

(2017) Nicholas J. Clark et al.   MOLECULAR ECOLOGY

Bayesian species identification under the multispecies coalescent provides significant improvements to DNA barcoding analyses

(2017) Ziheng Yang et al.   MOLECULAR ECOLOGY

Cryptic diversity and discordance in single-locus species delimitation methods within horned lizards (Phrynosomatidae: Phrynosoma )

(2017) Christopher Blair et al.   Molecular Ecology Resources

Diversity, abundance, and host relationships of avian malaria and related haemosporidians in New Mexico pine forests

(2017) Rosario A. Marroquin-Flores et al.   PeerJ

Multiple cryptic species of sympatric generalists within the avian blood parasiteHaemoproteus majoris

(2016) E. Nilsson et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Utility of combining morphological characters, nuclear and mitochondrial genes: An attempt to resolve the conflicts of species identification for ciliated protists

(2016) Yan Zhao et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylogeny of haemosporidian blood parasites revealed by a multi-gene approach

(2016) Janus Borner et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Genetic sequence data reveals widespread sharing of Leucocytozoon lineages in corvids

(2016) Dave Freund et al.   PARASITOLOGY RESEARCH

Leucocytozoon Diversity and Possible Vectors in the Neotropical highlands of Colombia

(2016) Ingrid A. Lotta et al.   PROTIST

The art and science of species delimitation

(2015) Bruce Rannala   Current Zoology

The BPP program for species tree estimation and species delimitation

(2015) Ziheng Yang   Current Zoology

Clonal reproduction shapes evolution in the lizard malaria parasite Plasmodium floridense

(2015) Bryan G. Falk et al.   EVOLUTION

Bayesian species delimitation combining multiple genes and traits in a unified framework

(2015) Claudia Solís-Lemus et al.   EVOLUTION

Molecular analyses on host-seeking black flies (Diptera: Simuliidae) reveal a diverse assemblage of Leucocytozoon (Apicomplexa: Haemospororida) parasites in an alpine ecosystem

(2015) Courtney C. Murdock et al.   Parasites & Vectors

Genetic Diversity and Host Specificity Varies across Three Genera of Blood Parasites in Ducks of the Pacific Americas Flyway

(2015) Andrew B. Reeves et al.   PLoS One

Hidden costs of infection: Chronic malaria accelerates telomere degradation and senescence in wild birds

(2015) M. Asghar et al.   SCIENCE

The Species versus Subspecies Conundrum: Quantitative Delimitation from Integrating Multiple Data Types within a Single Bayesian Approach in Hercules Beetles

(2015) Jen-Pan Huang et al.   SYSTEMATIC BIOLOGY

popart: full-feature software for haplotype network construction

(2015) Jessica W. Leigh et al.   Methods in Ecology and Evolution

The art and science of species delimitation

(2015) Bruce Rannala   Current Zoology

The BPP program for species tree estimation and species delimitation

(2015) Ziheng Yang   Current Zoology

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

Global phylogeography of the avian malaria pathogenPlasmodium relictumbased on MSP1 allelic diversity

(2014) Olof Hellgren et al.   ECOGRAPHY

Distribution, diversity and drivers of blood-borne parasite co-infections in Alaskan bird populations

(2014) Khouanchy S. Oakgrove et al.   INTERNATIONAL JOURNAL FOR PARASITOLOGY

Diverse avian malaria and other haemosporidian parasites in Andean house wrens: evidence for regional co-diversification by host-switching

(2014) Spencer C. Galen et al.   JOURNAL OF AVIAN BIOLOGY

Unguided Species Delimitation Using DNA Sequence Data from Multiple Loci

(2014) Z. Yang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Does the niche breadth or trade-off hypothesis explain the abundance-occupancy relationship in avian Haemosporidia?

(2014) Sergei V. Drovetski et al.   MOLECULAR ECOLOGY

Species limits in avian malaria parasites (Haemosporida): how to move forward in the molecular era

(2014) DIANA C. OUTLAW et al.   PARASITOLOGY

Leucocytozoon pterotenuis sp. nov. (Haemosporida, Leucocytozoidae): description of the morphologically unique species from the Grallariidae birds, with remarks on the distribution of Leucocytozoon parasites in the Neotropics

(2014) Ingrid A. Lotta et al.   PARASITOLOGY RESEARCH

Dynamics of clonal diversity in natural infections of the malaria parasite Plasmodium mexicanum in its free-ranging lizard host

(2014) Nathan D. Hicks et al.   PARASITOLOGY RESEARCH

Species formation by host shifting in avian malaria parasites

(2014) R. E. Ricklefs et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Improved Reversible Jump Algorithms for Bayesian Species Delimitation

(2013) Bruce Rannala et al.   GENETICS

How to fail at species delimitation

(2013) Bryan C. Carstens et al.   MOLECULAR ECOLOGY

Diversity, Prevalence, and Host Specificity of AvianPlasmodiumandHaemoproteusin a Western Amazon Assemblage

(2013) Maria Svensson-Coelho et al.   ORNITHOLOGICAL MONOGRAPHS

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

Host compatibility rather than vector-host-encounter rate determines the host range of avian Plasmodium parasites

(2013) M. C. I. Medeiros et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Delimiting Species Using Single-Locus Data and the Generalized Mixed Yule Coalescent Approach: A Revised Method and Evaluation on Simulated Data Sets

(2013) Tomochika Fujisawa et al.   SYSTEMATIC BIOLOGY

Factors affecting species delimitations with the GMYC model: insights from a butterfly survey

(2013) Gerard Talavera et al.   Methods in Ecology and Evolution

Phylogenetic estimation error can decrease the accuracy of species delimitation: a Bayesian implementation of the general mixed Yule-coalescent model

(2012) Noah M Reid et al.   BMC EVOLUTIONARY BIOLOGY

Bayesian Phylogenetics with BEAUti and the BEAST 1.7

(2012) Alexei J. Drummond et al.   MOLECULAR BIOLOGY AND EVOLUTION

The role of immigration andin-situradiation in explaining blood parasite assemblages in an island bird clade

(2012) JOSSELIN CORNUAULT et al.   MOLECULAR ECOLOGY

Identifying biases at different spatial and temporal scales of diversification: a case study in the Neotropical parrotlet genusForpus

(2012) Brian Tilston Smith et al.   MOLECULAR ECOLOGY

Analysis of Plasmodium falciparum diversity in natural infections by deep sequencing

(2012) Magnus Manske et al.   NATURE

jModelTest 2: more models, new heuristics and parallel computing

(2012) Diego Darriba et al.   NATURE METHODS

Coalescent-based species delimitation in an integrative taxonomy

(2012) Matthew K. Fujita et al.   TRENDS IN ECOLOGY & EVOLUTION

Concepts in protistology: Species definitions and boundaries

(2011) Jens Boenigk et al.   EUROPEAN JOURNAL OF PROTISTOLOGY

Tree-based delimitation of morphologically ambiguous taxa: A study of the lizard malaria parasites on the Caribbean island of Hispaniola

(2011) Bryan G. Falk et al.   INTERNATIONAL JOURNAL FOR PARASITOLOGY

Biogeography of avian blood parasites (Leucocytozoon spp.) in two resident hosts across Europe: phylogeographic structuring or the abundance-occupancy relationship?

(2011) TANIA JENKINS et al.   MOLECULAR ECOLOGY

ABGD, Automatic Barcode Gap Discovery for primary species delimitation

(2011) N. PUILLANDRE et al.   MOLECULAR ECOLOGY

Speciation at the Mogollon Rim in the Arizona Mountain Kingsnake (Lampropeltis pyromelana)

(2011) Frank T. Burbrink et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Geomyces destructans sp. nov. associated with bat white-nose syndrome

(2010) A. Gargas et al.   MYCOTAXON

Bayesian species delimitation using multilocus sequence data

(2010) Z. Yang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Molecular Clock for Malaria Parasites

(2010) R. E. Ricklefs et al.   SCIENCE

Species Delimitation Using a Combined Coalescent and Information-Theoretic Approach: An Example from North American Myotis Bats

(2010) Bryan C. Carstens et al.   SYSTEMATIC BIOLOGY

In Vitro Hybridization of Haemoproteus Spp.: An Experimental Approach for Direct Investigation of Reproductive Isolation of Parasites

(2009) Gediminas Valkiūnas et al.   JOURNAL OF PARASITOLOGY

MalAvi: a public database of malaria parasites and related haemosporidians in avian hosts based on mitochondrial cytochromeblineages

(2009) STAFFAN BENSCH et al.   Molecular Ecology Resources

Effective population size and patterns of molecular evolution and variation

(2009) Brian Charlesworth   NATURE REVIEWS GENETICS

Accelerated Species Inventory on Madagascar Using Coalescent-Based Models of Species Delineation

(2009) Michael T. Monaghan et al.   SYSTEMATIC BIOLOGY

Do mosquitoes filter the access of Plasmodium cytochrome b lineages to an avian host?

(2008) ANDREA B. GAGER et al.   MOLECULAR ECOLOGY

Bird hosts, blood parasites and their vectors — associations uncovered by molecular analyses of blackfly blood meals

(2008) O. HELLGREN et al.   MOLECULAR ECOLOGY

A three-genome phylogeny of malaria parasites (Plasmodium and closely related genera): Evolution of life-history traits and host switches

(2007) Ellen S. Martinsen et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION