Diversity and evolution of the animal virome

Lessons from the host defences of bats, a unique viral reservoir

(2021) Aaron T. Irving et al.   NATURE

Loss of furin cleavage site attenuates SARS-CoV-2 pathogenesis

(2021) Bryan A. Johnson et al.   NATURE

Identification of novel avian and mammalian deltaviruses provides new insights into deltavirus evolution

(2021) Masashi Iwamoto et al.   Virus Evolution

A Metagenomic Analysis of Mosquito Virome Collected From Different Animal Farms at Yunnan–Myanmar Border of China

(2021) Muddassar Hameed et al.   Frontiers in Microbiology

Bats are key hosts in the radiation of mammal-associated Bartonella bacteria

(2021) Clifton D. McKee et al.   INFECTION GENETICS AND EVOLUTION

Sensitive protein alignments at tree-of-life scale using DIAMOND

(2021) Benjamin Buchfink et al.   NATURE METHODS

The virome of German bats: comparing virus discovery approaches

(2021) Claudia Kohl et al.   Scientific Reports

How accurately can we assess zoonotic risk?

(2021) Michelle Wille et al.   PLOS BIOLOGY

Changes to virus taxonomy and to the International Code of Virus Classification and Nomenclature ratified by the International Committee on Taxonomy of Viruses (2021)

(2021) Peter J. Walker et al.   ARCHIVES OF VIROLOGY

Identification of novel bat coronaviruses sheds light on the evolutionary origins of SARS-CoV-2 and related viruses

(2021) Hong Zhou et al.   CELL

The origins of SARS-CoV-2: A critical review

(2021) Edward C. Holmes et al.   CELL

SARS‐CoV‐2 infection in cats and dogs in infected mink farms

(2021) Anna E. Aart et al.   Transboundary and Emerging Diseases

Slippery when wet: cross-species transmission of divergent coronaviruses in bony and jawless fish and the evolutionary history of the Coronaviridae

(2021) Allison K Miller et al.   Virus Evolution

A novel lineage of polyomaviruses identified in bark scorpions

(2021) Kara Schmidlin et al.   VIROLOGY

Identifying and prioritizing potential human-infecting viruses from their genome sequences

(2021) Nardus Mollentze et al.   PLOS BIOLOGY

Genomic characterisation and epidemiology of 2019 novel coronavirus: implications for virus origins and receptor binding

(2020) Roujian Lu et al.   LANCET

A new coronavirus associated with human respiratory disease in China

(2020) Fan Wu et al.   NATURE

Novel Insights Into Immune Systems of Bats

(2020) Arinjay Banerjee et al.   Frontiers in Immunology

Ebola virus disease

(2020) Shevin T. Jacob et al.   Nature Reviews Disease Primers

Gene gain and loss across the metazoan tree of life

(2020) Rosa Fernández et al.   Nature Ecology & Evolution

Sustained RNA virome diversity in Antarctic penguins and their ticks

(2020) Michelle Wille et al.   ISME Journal

Exploration of the virome of the European brown shrimp (Crangon crangon)

(2020) Benigna Van Eynde et al.   JOURNAL OF GENERAL VIROLOGY

Identification of Reptarenaviruses, Hartmaniviruses, and a Novel Chuvirus in Captive Native Brazilian Boa Constrictors with Boid Inclusion Body Disease

(2020) Fernando Froner Argenta et al.   JOURNAL OF VIROLOGY

Identifying SARS-CoV-2 related coronaviruses in Malayan pangolins

(2020) Tommy Tsan-Yuk Lam et al.   NATURE

Viral zoonotic risk is homogenous among taxonomic orders of mammalian and avian reservoir hosts

(2020) Nardus Mollentze et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Predicting the global mammalian viral sharing network using phylogeography

(2020) Gregory F. Albery et al.   Nature Communications

Bat-borne virus diversity, spillover and emergence

(2020) Michael Letko et al.   NATURE REVIEWS MICROBIOLOGY

SARS-CoV-2 and bat RaTG13 spike glycoprotein structures inform on virus evolution and furin-cleavage effects

(2020) Antoni G. Wrobel et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Mammalian deltavirus without hepadnavirus coinfection in the neotropical rodentProechimys semispinosus

(2020) Sofia Paraskevopoulou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Measles virus and rinderpest virus divergence dated to the sixth century BCE

(2020) Ariane Düx et al.   SCIENCE

Divergent Influenza-Like Viruses of Amphibians and Fish Support an Ancient Evolutionary Association

(2020) Rhys Parry et al.   Viruses-Basel

Origin and cross-species transmission of bat coronaviruses in China

(2020) Alice Latinne et al.   Nature Communications

Metagenomic Analysis of the Virome of Mosquito Excreta

(2020) Ana L. Ramírez et al.   mSphere

Extensive Genetic Diversity And Host Range Of Rodent-Borne Coronaviruses

(2020) Wen Wang et al.   Virus Evolution

A Review of Pathogen Transmission at the Backyard Chicken–Wild Bird Interface

(2020) Andrea J. Ayala et al.   Frontiers in Veterinary Science

Fecal viral diversity of captive and wild Tasmanian devils characterized using virion-enriched metagenomics and meta-transcriptomics

(2019) Rowena Chong et al.   JOURNAL OF VIROLOGY

Current status and management of canine leishmaniasis in Latin America

(2019) Mary Marcondes et al.   RESEARCH IN VETERINARY SCIENCE

Identification of a Novel Deltavirus in Boa Constrictors

(2019) Udo Hetzel et al.   mBio

Clinical Metagenomic Sequencing for Diagnosis of Meningitis and Encephalitis

(2019) Michael R. Wilson et al.   NEW ENGLAND JOURNAL OF MEDICINE

Global estimates of mammalian viral diversity accounting for host sharing

(2019) Colin J. Carlson et al.   Nature Ecology & Evolution

Onward transmission of viruses: how do viruses emerge to cause epidemics after spillover?

(2019) Brian R. Wasik et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Re-assessing the diversity of negative strand RNA viruses in insects

(2019) Simon Käfer et al.   PLoS Pathogens

Using Metagenomics to Characterize an Expanding Virosphere

(2018) Yong-Zhen Zhang et al.   CELL

Reef invertebrate viromics: diversity, host specificity and functional capacity

(2018) Patrick W. Laffy et al.   ENVIRONMENTAL MICROBIOLOGY

The evolutionary history of vertebrate RNA viruses

(2018) Mang Shi et al.   NATURE

A decade of RNA virus metagenomics is (not) enough

(2018) Alexander L. Greninger   VIRUS RESEARCH

Viruses of archaea: Structural, functional, environmental and evolutionary genomics

(2018) Mart Krupovic et al.   VIRUS RESEARCH

A metagenomic survey identifies Tamdy orthonairovirus as well as divergent phlebo-, rhabdo-, chu- and flavi-like viruses in Anatolia, Turkey

(2018) Annika Brinkmann et al.   Ticks and Tick-Borne Diseases

Chronic Meningitis Investigated via Metagenomic Next-Generation Sequencing

(2018) Michael R. Wilson et al.   JAMA Neurology

Pandemics: spend on surveillance, not prediction

(2018) Edward C. Holmes et al.   NATURE

Virome of > 12 thousand Culex mosquitoes from throughout California

(2018) Mohammadreza Sadeghi et al.   VIROLOGY

Extensive Diversity of RNA Viruses in Australian Ticks

(2018) Erin Harvey et al.   JOURNAL OF VIROLOGY

Dinucleotide Composition in Animal RNA Viruses Is Shaped More by Virus Family than by Host Species

(2017) Francesca Di Giallonardo et al.   JOURNAL OF VIROLOGY

Host and viral traits predict zoonotic spillover from mammals

(2017) Kevin J. Olival et al.   NATURE

Pathways to zoonotic spillover

(2017) Raina K. Plowright et al.   NATURE REVIEWS MICROBIOLOGY

Evolution of selective-sequencing approaches for virus discovery and virome analysis

(2017) Arvind Kumar et al.   VIRUS RESEARCH

Origins and challenges of viral dark matter

(2017) Siddharth R. Krishnamurthy et al.   VIRUS RESEARCH

Predicting virus emergence amid evolutionary noise

(2017) Jemma L. Geoghegan et al.   Open Biology

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

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

The Baltic Sea Virome: Diversity and Transcriptional Activity of DNA and RNA Viruses

(2017) Lisa Zeigler Allen et al.   mSystems

Assessing the Role of Seabirds in the Ecology of Influenza A Viruses

(2016) Andrew S. Lang et al.   AVIAN DISEASES

A Multicomponent Animal Virus Isolated from Mosquitoes

(2016) Jason T. Ladner et al.   Cell Host & Microbe

Mechanisms of viral mutation

(2016) Rafael Sanjuán et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

The ecology and adaptive evolution of influenza A interspecies transmission

(2016) Udayan Joseph et al.   Influenza and Other Respiratory Viruses

Are Migratory Animals Superspreaders of Infection?: An Introduction to the Symposium

(2016) Alexa Fritzsche McKay et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

Concurrence of Iridovirus, Polyomavirus, and a Unique Member of a New Group of Fish Papillomaviruses in Lymphocystis Disease-Affected Gilthead Sea Bream

(2016) Alberto López-Bueno et al.   JOURNAL OF VIROLOGY

Distinct Viral Lineages from Fish and Amphibians Reveal the Complex Evolutionary History of Hepadnaviruses

(2016) Jennifer A. Dill et al.   JOURNAL OF VIROLOGY

Redefining the invertebrate RNA virosphere

(2016) Mang Shi et al.   NATURE

Moving beyond metagenomics to find the next pandemic virus

(2016) Vincent Racaniello   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Estimates of the magnitudes of major marine mass extinctions in earth history

(2016) Steven M. Stanley   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A diarrheic chicken simultaneously co-infected with multiple picornaviruses: Complete genome analysis of avian picornaviruses representing up to six genera

(2016) Ákos Boros et al.   VIROLOGY

Climate Change and the Arboviruses: Lessons from the Evolution of the Dengue and Yellow Fever Viruses

(2016) Walter J. Tabachnick   Annual Review of Virology

Overview and future of single particle electron cryomicroscopy

(2015) Richard Henderson   ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS

Uncertainty in the Timing of Origin of Animals and the Limits of Precision in Molecular Timescales

(2015) Mario dos Reis et al.   CURRENT BIOLOGY

Genetic Adaptation of Influenza A Viruses in Domestic Animals and Their Potential Role in Interspecies Transmission: A Literature Review

(2015) Olga Munoz et al.   EcoHealth

Local Virus Extinctions following a Host Population Bottleneck

(2015) Beatrix Kapusinszky et al.   JOURNAL OF VIROLOGY

Divergent Viruses Discovered in Arthropods and Vertebrates Revise the Evolutionary History of the Flaviviridae and Related Viruses

(2015) Mang Shi et al.   JOURNAL OF VIROLOGY

Climate change and vector-borne diseases: what are the implications for public health research and policy?

(2015) D. Campbell-Lendrum et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Evolutionary and phenotypic analysis of live virus isolates suggests arthropod origin of a pathogenic RNA virus family

(2015) Marco Marklewitz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comprehensive serological profiling of human populations using a synthetic human virome

(2015) G. J. Xu et al.   SCIENCE

Virome Capture Sequencing Enables Sensitive Viral Diagnosis and Comprehensive Virome Analysis

(2015) Thomas Briese et al.   mBio

The Discovery, Distribution, and Evolution of Viruses Associated with Drosophila melanogaster

(2015) Claire L. Webster et al.   PLOS BIOLOGY

Virome Analysis of Amblyomma americanum, Dermacentor variabilis, and Ixodes scapularis Ticks Reveals Novel Highly Divergent Vertebrate and Invertebrate Viruses

(2014) R. Tokarz et al.   JOURNAL OF VIROLOGY

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

A tick-borne segmented RNA virus contains genome segments derived from unsegmented viral ancestors

(2014) X.-C. Qin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Molecular Survey of RNA Viruses in Hungarian Bats: Discovering Novel Astroviruses, Coronaviruses, and Caliciviruses

(2014) Gábor Kemenesi et al.   VECTOR-BORNE AND ZOONOTIC DISEASES

Dengue and chikungunya: long-distance spread and outbreaks in naïve areas

(2014) Giovanni Rezza   Pathogens and Global Health

Origins of HIV and the AIDS Pandemic

(2013) P. M. Sharp et al.   Cold Spring Harbor Perspectives in Medicine

Metagenomic Analysis of Viruses from Bat Fecal Samples Reveals Many Novel Viruses in Insectivorous Bats in China

(2012) Xingyi Ge et al.   JOURNAL OF VIROLOGY

Prediction and prevention of the next pandemic zoonosis

(2012) Stephen S Morse et al.   LANCET

Bats and their virome: an important source of emerging viruses capable of infecting humans

(2012) Ina Smith et al.   Current Opinion in Virology

The Fecal Viral Flora of California Sea Lions

(2011) L. Li et al.   JOURNAL OF VIROLOGY

Mass extinctions, biodiversity and mitochondrial function: are bats ‘special’ as reservoirs for emerging viruses?

(2011) Lin-Fa Wang et al.   Current Opinion in Virology

On the Biological Success of Viruses

(2010) Brian R. Wasik et al.   Annual Review of Microbiology

Influenza Virus Evolution, Host Adaptation, and Pandemic Formation

(2010) Jeffery K. Taubenberger et al.   Cell Host & Microbe

Metagenomic Analysis of the Viromes of Three North American Bat Species: Viral Diversity among Different Bat Species That Share a Common Habitat

(2010) E. F. Donaldson 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

A Primer on Metagenomics

(2010) John C. Wooley et al.   PLoS Computational Biology

Origin and evolution of the adaptive immune system: genetic events and selective pressures

(2009) Martin F. Flajnik et al.   NATURE REVIEWS GENETICS

Structure is three to ten times more conserved than sequence-A study of structural response in protein cores

(2009) Kristoffer Illergård et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Viral membrane fusion

(2008) Stephen C Harrison   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Phylogenetic profiles reveal evolutionary relationships within the "twilight zone" of sequence similarity

(2008) G. S. Chang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Impact of climate change and other factors on emerging arbovirus diseases

(2008) E.A. Gould et al.   TRANSACTIONS OF THE ROYAL SOCIETY OF TROPICAL MEDICINE AND HYGIENE