Revised time scales of RNA virus evolution based on spatial information

Comparative analysis estimates the relative frequencies of co-divergence and cross-species transmission within viral families

(2017) Jemma L. Geoghegan et al.   PLoS Pathogens

High genetic structuring of Tula hantavirus

(2016) Sabrina Schmidt et al.   ARCHIVES OF VIROLOGY

Declining transition/transversion ratios through time reveal limitations to the accuracy of nucleotide substitution models

(2015) Sebastián Duchêne et al.   BMC EVOLUTIONARY BIOLOGY

Spatiotemporal dynamics of Puumala hantavirus associated with its rodent host,Myodes glareolus

(2015) Vanessa Weber de Melo et al.   Evolutionary Applications

Temporal and spatial analysis of the 2014–2015 Ebola virus outbreak in West Africa

(2015) Miles W. Carroll et al.   NATURE

Keeping a watchful eye on Ebola

(2015) Naomi Attar   NATURE REVIEWS GENETICS

Virus evolution and transmission in an ever more connected world

(2015) Oliver G. Pybus et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

How a virus travels the world

(2015) J. H. Verhagen et al.   SCIENCE

Dating Tips for Divergence-Time Estimation

(2015) Joseph E. O’Reilly et al.   TRENDS IN GENETICS

What is the time-scale of hantavirus evolution?

(2014) Yong-Zhen Zhang et al.   INFECTION GENETICS AND EVOLUTION

The impact of calibration and clock-model choice on molecular estimates of divergence times

(2014) Sebastián Duchêne et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Continental-Scale Footprint of Balancing and Positive Selection in a Small Rodent (Microtus arvalis)

(2014) Martin C. Fischer et al.   PLoS One

Analyses of evolutionary dynamics in viruses are hindered by a time-dependent bias in rate estimates

(2014) S. Duchene et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The early spread and epidemic ignition of HIV-1 in human populations

(2014) N. R. Faria et al.   SCIENCE

Evolution of hantaviruses: Co-speciation with reservoir hosts for more than 100MYR

(2014) Alexander Plyusnin et al.   VIRUS RESEARCH

Geographic population structure analysis of worldwide human populations infers their biogeographical origins

(2014) Eran Elhaik et al.   Nature Communications

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

(2014) Remco Bouckaert et al.   PLoS Computational Biology

Phylogeography and evolutionary history of rodent-borne hantaviruses

(2013) W.M. Souza et al.   INFECTION GENETICS AND EVOLUTION

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

(2013) Koichiro Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Adaptive evolution during an ongoing range expansion: the invasive bank vole (Myodes glareolus) in Ireland

(2013) Thomas A. White et al.   MOLECULAR ECOLOGY

Uncovering the mysteries of hantavirus infections

(2013) Antti Vaheri et al.   NATURE REVIEWS MICROBIOLOGY

The Hidden Geometry of Complex, Network-Driven Contagion Phenomena

(2013) D. Brockmann et al.   SCIENCE

Dating Phylogenies with Sequentially Sampled Tips

(2013) Tanja Stadler et al.   SYSTEMATIC BIOLOGY

Rat hepatitis E virus: Geographical clustering within Germany and serological detection in wild Norway rats (Rattus norvegicus)

(2012) Reimar Johne et al.   INFECTION GENETICS AND EVOLUTION

Phylodynamics of H5N1 avian influenza virus in Indonesia

(2012) TOMMY TSAN-YUK LAM et al.   MOLECULAR ECOLOGY

jModelTest 2: more models, new heuristics and parallel computing

(2012) Diego Darriba et al.   NATURE METHODS

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Purifying Selection Can Obscure the Ancient Age of Viral Lineages

(2011) Joel O. Wertheim et al.   MOLECULAR BIOLOGY AND EVOLUTION

Late Pleistocene colonization of North America from Northeast Asia: New insights from large-scale paleogeographic reconstructions

(2011) E. James Dixon   QUATERNARY INTERNATIONAL

Phylogenetic analysis of Puumala virus subtype Bavaria, characterization and diagnostic use of its recombinant nucleocapsid protein

(2011) Marc Mertens et al.   VIRUS GENES

The Evolutionary Genetics of Emerging Viruses

(2010) Edward C. Holmes   Annual Review of Ecology Evolution and Systematics

Isolation by distance explains genetic structure of Buggy Creek virus, a bird-associated arbovirus

(2010) Abinash Padhi et al.   EVOLUTIONARY ECOLOGY

Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows

(2010) LAURENT EXCOFFIER et al.   Molecular Ecology Resources

Spatiotemporal Structure of Molecular Evolution of H5N1 Highly Pathogenic Avian Influenza Viruses in Vietnam

(2010) Margaret A. Carrel et al.   PLoS One

Island Biogeography Reveals the Deep History of SIV

(2010) M. Worobey et al.   SCIENCE

Genomic Scans Support Repetitive Continental Colonization Events during the Rapid Radiation of Voles (Rodentia: Microtus): the Utility of AFLPs versus Mitochondrial and Nuclear Sequence Markers

(2010) Sabine Fink et al.   SYSTEMATIC BIOLOGY

Extensive Host Sharing of Central European Tula Virus

(2009) J. Schmidt-Chanasit et al.   JOURNAL OF VIROLOGY

Dating the Age of the SIV Lineages That Gave Rise to HIV-1 and HIV-2

(2009) Joel O. Wertheim et al.   PLoS Computational Biology

Hantavirus Evolution in Relation to Its Rodent and Insectivore Hosts: No Evidence for Codivergence

(2008) C. Ramsden et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genes mirror geography within Europe

(2008) John Novembre et al.   NATURE

Rates of evolutionary change in viruses: patterns and determinants

(2008) Siobain Duffy et al.   NATURE REVIEWS GENETICS