A Needle in A Haystack: Tracing Bivalve-Associated Viruses in High-Throughput Transcriptomic Data

Using Metagenomics to Characterize an Expanding Virosphere

(2018) Yong-Zhen Zhang et al.   CELL

Identification of a newly described OsHV-1 µvar from the North Adriatic Sea (Italy)

(2018) Miriam Abbadi et al.   JOURNAL OF GENERAL VIROLOGY

A decade of RNA virus metagenomics is (not) enough

(2018) Alexander L. Greninger   VIRUS RESEARCH

Meta-transcriptomics and the evolutionary biology of RNA viruses

(2018) Mang Shi et al.   VIRUS RESEARCH

Metagenomics reshapes the concepts of RNA virus evolution by revealing extensive horizontal virus transfer

(2018) Valerian V. Dolja et al.   VIRUS RESEARCH

Antiviral Defense and Innate Immune Memory in the Oyster

(2018) Timothy Green et al.   Viruses-Basel

RNA Dependent RNA Polymerases: Insights from Structure, Function and Evolution

(2018) Sangita Venkataraman et al.   Viruses-Basel

AID/APOBEC-like cytidine deaminases are ancient innate immune mediators in invertebrates

(2018) Mei-Chen Liu et al.   Nature Communications

Expansion of the metazoan virosphere: progress, pitfalls, and prospects

(2018) Darren J Obbard   Current Opinion in Virology

Metagenomic sequencing suggests a diversity of RNA interference-like responses to viruses across multicellular eukaryotes

(2018) Fergal M. Waldron et al.   PLoS Genetics

Mechanisms and Concepts in RNA Virus Population Dynamics and Evolution

(2018) Patrick T. Dolan et al.   Annual Review of Virology

From the raw bar to the bench: Bivalves as models for human health

(2018) José A. Fernández Robledo et al.   DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY

Viruses infecting marine molluscs

(2017) Isabelle Arzul et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

Advances in the application of high-throughput sequencing in invertebrate virology

(2017) R. van Aerle et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

Microbial Diseases of Bivalve Mollusks: Infections, Immunology and Antimicrobial Defense

(2017) Carla Zannella et al.   Marine Drugs

A-to-I RNA Editing in the Earliest-Diverging Eumetazoan Phyla

(2017) Hagit T. Porath et al.   MOLECULAR BIOLOGY AND EVOLUTION

Mimivirus: leading the way in the discovery of giant viruses of amoebae

(2017) Philippe Colson et al.   NATURE REVIEWS MICROBIOLOGY

Virus taxonomy in the age of metagenomics

(2017) Peter Simmonds et al.   NATURE REVIEWS MICROBIOLOGY

A conflict of interest: the evolutionary arms race between mammalian APOBEC3 and lentiviral Vif

(2017) Yusuke Nakano et al.   Retrovirology

Giant viruses with an expanded complement of translation system components

(2017) Frederik Schulz et al.   SCIENCE

VirusDetect: An automated pipeline for efficient virus discovery using deep sequencing of small RNAs

(2017) Yi Zheng et al.   VIROLOGY

A bioinformatics approach reveals seven nearly-complete RNA-virus genomes in bivalve RNA-seq data

(2017) Umberto Rosani et al.   VIRUS RESEARCH

Occurrence and Trend of Hepatitis A Virus in Bivalve Molluscs Production Areas Following a Contamination Event

(2017) Elisabetta Suffredini et al.   Food and Environmental Virology

Virus-host relationships of marine single-celled eukaryotes resolved from metatranscriptomics

(2017) Mohammad Moniruzzaman et al.   Nature Communications

RNA editing by the host ADAR system affects the molecular evolution of the Zika virus

(2017) Helen Piontkivska et al.   Ecology and Evolution

Accurate Identification and Quantification of DNA Species by Next-Generation Sequencing in Adeno-Associated Viral Vectors Produced in Insect Cells

(2017) Magalie Penaud-Budloo et al.   Human Gene Therapy Methods

The preferred nucleotide contexts of the AID/APOBEC cytidine deaminases have differential effects when mutating retrotransposon and virus sequences compared to host genes

(2017) Jeffrey Chen et al.   PLoS Computational Biology

The Evolution of Antiviral Defense Systems

(2016) Benjamin R. tenOever   Cell Host & Microbe

Inevitability of Genetic Parasites

(2016) Jaime Iranzo et al.   Genome Biology and Evolution

Role of Host-Driven Mutagenesis in Determining Genome Evolution of Sigma Virus (DMelSV; Rhabdoviridae) inDrosophila melanogaster

(2016) Helen Piontkivska et al.   Genome Biology and Evolution

Ostreid herpesvirus type 1 genomic diversity in wild populations of Pacific oyster Crassostrea gigas from Italian coasts

(2016) E.A.V. Burioli et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

Redefining the invertebrate RNA virosphere

(2016) Mang Shi et al.   NATURE

Viruses and mobile elements as drivers of evolutionary transitions

(2016) Eugene V. Koonin   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

piRNA pathway is not required for antiviral defense inDrosophila melanogaster

(2016) Marine Petit et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Differences in tolerance to anthropogenic stress between invasive and native bivalves

(2016) Ana Bielen et al.   SCIENCE OF THE TOTAL ENVIRONMENT

PIWIs Go Viral: Arbovirus-Derived piRNAs in Vector Mosquitoes

(2016) Pascal Miesen et al.   PLoS Pathogens

A Ribonuclease Coordinates siRNA Amplification and mRNA Cleavage during RNAi

(2015) Hsin-Yue Tsai et al.   CELL

Predicting the spread of aquatic invaders: insight from 200 years of invasion by zebra mussels

(2015) Alexander Y. Karatayev et al.   ECOLOGICAL APPLICATIONS

OsHV-1 countermeasures to the Pacific oyster's anti-viral response

(2015) Timothy J. Green et al.   FISH & SHELLFISH IMMUNOLOGY

Detection of undescribed ostreid herpesvirus 1 (OsHV-1) specimens from Pacific oyster, Crassostrea gigas

(2015) Claire Martenot et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

Emerging and endemic types of Ostreid herpesvirus 1 were detected in bivalves in China

(2015) Changming Bai et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

Rising to the challenge: accelerated pace of discovery transforms marine virology

(2015) Jennifer R. Brum et al.   NATURE REVIEWS MICROBIOLOGY

Hepatitis A and E Viruses in Wastewaters, in River Waters, and in Bivalve Molluscs in Italy

(2015) M. Iaconelli et al.   Food and Environmental Virology

Mussel adhesion is dictated by time-regulated secretion and molecular conformation of mussel adhesive proteins

(2015) Luigi Petrone et al.   Nature Communications

Unprecedented genomic diversity of RNA viruses in arthropods reveals the ancestry of negative-sense RNA viruses

(2015) Ci-Xiu Li et al.   eLife

Species Distribution and Population Connectivity of Deep-Sea Mussels at Hydrocarbon Seeps in the Gulf of Mexico

(2015) Baptiste Faure et al.   PLoS One

Oysters as hot spots for mimivirus isolation

(2014) Kétyllen R. Andrade et al.   ARCHIVES OF VIROLOGY

Virus World as an Evolutionary Network of Viruses and Capsidless Selfish Elements

(2014) Eugene V. Koonin et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

A genome-wide map of hyper-edited RNA reveals numerous new sites

(2014) Hagit T. Porath et al.   Nature Communications

The genetics of host–virus coevolution in invertebrates

(2014) Darren J Obbard et al.   Current Opinion in Virology

Evolution of Innate Immunity: Clues from Invertebrates via Fish to Mammals

(2014) Kurt Buchmann   Frontiers in Immunology

Arthropod viruses and small RNAs

(2013) Diveena Vijayendran et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

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

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

A model based criterion for gene expression calls using RNA-seq data

(2013) Günter P. Wagner et al.   THEORY IN BIOSCIENCES

The major role of viruses in cellular evolution: facts and hypotheses

(2013) Patrick Forterre et al.   Current Opinion in Virology

Virions at the Gates: Receptors and the Host–Virus Arms Race

(2013) John M. Coffin   PLOS BIOLOGY

A field guide to eukaryotic circular single-stranded DNA viruses: insights gained from metagenomics

(2012) Karyna Rosario et al.   ARCHIVES OF VIROLOGY

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

The oyster genome reveals stress adaptation and complexity of shell formation

(2012) Guofan Zhang et al.   NATURE

Metagenomics and future perspectives in virus discovery

(2012) John L Mokili et al.   Current Opinion in Virology

In Silico Reconstruction of Viral Genomes from Small RNAs Improves Virus-Derived Small Interfering RNA Profiling

(2011) N. Vodovar et al.   JOURNAL OF VIROLOGY

A Molecular Phylogeny of Bivalve Mollusks: Ancient Radiations and Divergences as Revealed by Mitochondrial Genes

(2011) Federico Plazzi et al.   PLoS One

Adenosine deaminases acting on RNA (ADARs) are both antiviral and proviral

(2011) Charles E. Samuel   VIROLOGY

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

Ecosystem Engineering Impact ofLimnoperna fortuneiin South America

(2010) Gustavo Darrigran et al.   ZOOLOGICAL SCIENCE

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Evidence for ADAR-induced hypermutation of the Drosophila sigma virus (Rhabdoviridae)

(2009) Jennifer A Carpenter et al.   BMC GENETICS