Endogenous hepadnaviruses, bornaviruses and circoviruses in snakes

A Case for the Ancient Origin of Coronaviruses

(2013) J. O. Wertheim et al.   JOURNAL OF VIROLOGY

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

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

Phylogenetic relationships of the enigmatic longtailed rattlesnakes (Crotalus ericsmithi, C. lannomi, and C. stejnegeri)

(2013) Jacobo Reyes-Velasco et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Paleovirology: inferring viral evolution from host genome sequence data

(2013) A. Katzourakis   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Comprehensive analysis of endogenous bornavirus-like elements in eukaryote genomes

(2013) M. Horie et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

When parasitic wasps hijacked viruses: genomic and functional evolution of polydnaviruses

(2013) E. A. Herniou et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Paleovirology of 'syncytins', retroviral env genes exapted for a role in placentation

(2013) C. Lavialle et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Virome Profiling of Bats from Myanmar by Metagenomic Analysis of Tissue Samples Reveals More Novel Mammalian Viruses

(2013) Biao He et al.   PLoS One

The Burmese python genome reveals the molecular basis for extreme adaptation in snakes

(2013) T. A. Castoe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The king cobra genome reveals dynamic gene evolution and adaptation in the snake venom system

(2013) F. J. Vonk et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Possible origins and evolution of the hepatitis B virus (HBV)

(2013) Stephen Locarnini et al.   SEMINARS IN CANCER BIOLOGY

Selectively maintained paleoviruses in Holarctic water fleas reveal an ancient origin for phleboviruses

(2013) Matthew J. Ballinger et al.   VIROLOGY

The genome of a Mesozoic paleovirus reveals the evolution of hepatitis B viruses

(2013) Alexander Suh et al.   Nature Communications

The Extraordinary Evolutionary History of the Reticuloendotheliosis Viruses

(2013) Anna Maria Niewiadomska et al.   PLOS BIOLOGY

Evidence for an endogenous papillomavirus-like element in the platypus genome

(2012) J. Cui et al.   JOURNAL OF GENERAL VIROLOGY

Endogenous Hepadnaviruses in the Genome of the Budgerigar (Melopsittacus undulatus) and the Evolution of Avian Hepadnaviruses

(2012) J. Cui et al.   JOURNAL OF VIROLOGY

Virome Analysis for Identification of Novel Mammalian Viruses in Bat Species from Chinese Provinces

(2012) Z. Wu et al.   JOURNAL OF VIROLOGY

The First Full-Length Endogenous Hepadnaviruses: Identification and Analysis

(2012) W. Liu et al.   JOURNAL OF VIROLOGY

Phylogeny, integration and expression of sigma virus-like genes in Drosophila

(2012) Matthew J. Ballinger et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Endogenous viruses: insights into viral evolution and impact on host biology

(2012) Cédric Feschotte et al.   NATURE REVIEWS GENETICS

Paleovirology and virally derived immunity

(2012) Amr Aswad et al.   TRENDS IN ECOLOGY & EVOLUTION

ProtTest 3: fast selection of best-fit models of protein evolution

(2011) Diego Darriba et al.   BIOINFORMATICS

Filoviruses are ancient and integrated into mammalian genomes

(2011) Derek J Taylor et al.   BMC EVOLUTIONARY BIOLOGY

Widespread Horizontal Gene Transfer from Circular Single-stranded DNA Viruses to Eukaryotic Genomes

(2011) Huiquan Liu et al.   BMC EVOLUTIONARY BIOLOGY

The Evolution of Endogenous Viral Elements

(2011) Edward C. Holmes   Cell Host & Microbe

Discovery of Highly Divergent Repeat Landscapes in Snake Genomes Using High-Throughput Sequencing

(2011) Todd A. Castoe et al.   Genome Biology and Evolution

Widespread Endogenization of Densoviruses and Parvoviruses in Animal and Human Genomes

(2011) H. Liu et al.   JOURNAL OF VIROLOGY

Fossil Rhabdoviral Sequences Integrated into Arthropod Genomes: Ontogeny, Evolution, and Potential Functionality

(2011) P. Fort et al.   MOLECULAR BIOLOGY AND EVOLUTION

Purifying Selection Can Obscure the Ancient Age of Viral Lineages

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

The genome of the green anole lizard and a comparative analysis with birds and mammals

(2011) Jessica Alföldi et al.   NATURE

Evolutionary Time-Scale of the Begomoviruses: Evidence from Integrated Sequences in the Nicotiana Genome

(2011) Pierre Lefeuvre et al.   PLoS One

Paleozoic origin of insect large dsDNA viruses

(2011) J. Theze et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Viral evolution in deep time: lentiviruses and mammals

(2011) Robert J. Gifford   TRENDS IN GENETICS

Two-stepping through time: mammals and viruses

(2011) Nicholas R. Meyerson et al.   TRENDS IN MICROBIOLOGY

Viruses Infecting Reptiles

(2011) Rachel E. Marschang   Viruses-Basel

Paleovirology—ghosts and gifts of viruses past

(2011) Maulik R Patel et al.   Current Opinion in Virology

Taming of the shrewd: novel eukaryotic genes from RNA viruses

(2010) Eugene V Koonin   BMC BIOLOGY

Dynamic Nucleotide Mutation Gradients and Control Region Usage in Squamate Reptile Mitochondrial Genomes

(2010) T.A. Castoe et al.   CYTOGENETIC AND GENOME RESEARCH

Widespread Horizontal Gene Transfer from Double-Stranded RNA Viruses to Eukaryotic Nuclear Genomes

(2010) H. Liu et al.   JOURNAL OF VIROLOGY

Discovery and Characterization of Mammalian Endogenous Parvoviruses

(2010) A. Kapoor et al.   JOURNAL OF VIROLOGY

Bat Guano Virome: Predominance of Dietary Viruses from Insects and Plants plus Novel Mammalian Viruses

(2010) L. Li et al.   JOURNAL OF VIROLOGY

Sequences from Ancestral Single-Stranded DNA Viruses in Vertebrate Genomes: the Parvoviridae and Circoviridae Are More than 40 to 50 Million Years Old

(2010) V. A. Belyi et al.   JOURNAL OF VIROLOGY

Endogenous non-retroviral RNA virus elements in mammalian genomes

(2010) Masayuki Horie et al.   NATURE

Island Biogeography Reveals the Deep History of SIV

(2010) M. Worobey et al.   SCIENCE

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Genomic Fossils Calibrate the Long-Term Evolution of Hepadnaviruses

(2010) Clément Gilbert et al.   PLOS BIOLOGY

Endogenous Viral Elements in Animal Genomes

(2010) Aris Katzourakis et al.   PLoS Genetics

Unexpected Inheritance: Multiple Integrations of Ancient Bornavirus and Ebolavirus/Marburgvirus Sequences in Vertebrate Genomes

(2010) Vladimir A. Belyi et al.   PLoS Pathogens

Retention of the virus-derived sequences in the nuclear genome of grapevine as a potential pathway to virus resistance

(2009) Christophe Bertsch et al.   Biology Direct

Hypothesis for heritable, anti-viral immunity in crustaceans and insects

(2009) Timothy W Flegel   Biology Direct

The evolution of novel fungal genes from non-retroviral RNA viruses

(2009) Derek J Taylor et al.   BMC BIOLOGY

Insights into the Evolutionary History of an Emerging Livestock Pathogen: Porcine Circovirus 2

(2009) C. Firth et al.   JOURNAL OF VIROLOGY

Origin, antiviral function and evidence for positive selection of the gammaretrovirus restriction gene Fv1 in the genus Mus

(2009) Y. Yan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Discovery of a Novel Single-Stranded DNA Virus from a Sea Turtle Fibropapilloma by Using Viral Metagenomics

(2008) T. F. F. Ng et al.   JOURNAL OF VIROLOGY

Rates of evolutionary change in viruses: patterns and determinants

(2008) Siobain Duffy et al.   NATURE REVIEWS GENETICS

The Taming of the Skew: Estimating Proper Confidence Intervals for Divergence Dates

(2008) Frank T. Burbrink et al.   SYSTEMATIC BIOLOGY