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

The Drosophila Genome Nexus: A Population Genomic Resource of 623 Drosophila melanogaster Genomes, Including 197 from a Single Ancestral Range Population

(2015) Justin B. Lack et al.   GENETICS

Ancient and Novel Small RNA Pathways Compensate for the Loss of piRNAs in Multiple Independent Nematode Lineages

(2015) Peter Sarkies et al.   PLOS BIOLOGY

The Causes and Consequences of Changes in Virulence following Pathogen Host Shifts

(2015) Ben Longdon et al.   PLoS Pathogens

The Drosophila Genome Nexus: A Population Genomic Resource of 623 Drosophila melanogaster Genomes, Including 197 from a Single Ancestral Range Population

(2015) Justin B. Lack et al.   GENETICS

Transposable element dynamics and PIWI regulation impacts lncRNA and gene expression diversity inDrosophilaovarian cell cultures

(2014) Yuliya A. Sytnikova et al.   GENOME RESEARCH

Diagnosis and discovery of fungal viruses using deep sequencing of small RNAs

(2014) E. J. Vainio et al.   JOURNAL OF GENERAL VIROLOGY

MicroRNAs as mediators of insect host–pathogen interactions and immunity

(2014) Mazhar Hussain et al.   JOURNAL OF INSECT PHYSIOLOGY

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

Discovery and Evolution of Bunyavirids in Arctic Phantom Midges and Ancient Bunyavirid-Like Sequences in Insect Genomes

(2014) M. J. Ballinger et al.   JOURNAL OF VIROLOGY

Flies on the move: an inherited virus mirrorsDrosophila melanogaster's elusive ecology and demography

(2014) Lena Wilfert et al.   MOLECULAR ECOLOGY

Diversity and dynamics of the Drosophila transcriptome

(2014) James B. Brown et al.   NATURE

Mosquito andDrosophilaentomobirnaviruses suppress dsRNA- and siRNA-induced RNAi

(2014) Koen W.R. van Cleef et al.   NUCLEIC ACIDS RESEARCH

Induction and suppression of tick cell antiviral RNAi responses by tick-borne flaviviruses

(2014) Esther Schnettler et al.   NUCLEIC ACIDS RESEARCH

Host adaptation to viruses relies on few genes with different cross-resistance properties

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

Novel Drosophila Viruses Encode Host-Specific Suppressors of RNAi

(2014) Joël T. van Mierlo et al.   PLoS Pathogens

Genome-Wide RNAi Screen Identifies Broadly-Acting Host Factors That Inhibit Arbovirus Infection

(2014) Ari Yasunaga et al.   PLoS Pathogens

Symbionts Commonly Provide Broad Spectrum Resistance to Viruses in Insects: A Comparative Analysis of Wolbachia Strains

(2014) Julien Martinez et al.   PLoS Pathogens

From deep sequencing to viral tagging: Recent advances in viral metagenomics

(2013) Dana Willner et al.   BIOESSAYS

Viruses and antiviral immunity in Drosophila

(2013) Jie Xu et al.   DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY

FUBAR: A Fast, Unconstrained Bayesian AppRoximation for Inferring Selection

(2013) B. Murrell et al.   MOLECULAR BIOLOGY AND EVOLUTION

FlyBase 102—advanced approaches to interrogating FlyBase

(2013) Susan E. St. Pierre et al.   NUCLEIC ACIDS RESEARCH

Simultaneously reconstructing viral cross-species transmission history and identifying the underlying constraints

(2013) N. R. Faria et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Dicer-2 Processes Diverse Viral RNA Species

(2013) Leah R. Sabin et al.   PLoS One

Suppressors of RNAi from plant viruses are subject to episodic positive selection

(2013) G. G. R. Murray et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

A virocentric perspective on the evolution of life

(2013) Eugene V Koonin et al.   Current Opinion in Virology

Wolbachia Variants Induce Differential Protection to Viruses in Drosophila melanogaster: A Phenotypic and Phylogenomic Analysis

(2013) Ewa Chrostek et al.   PLoS Genetics

Rapid Sequential Spread of Two Wolbachia Variants in Drosophila simulans

(2013) Peter Kriesner et al.   PLoS Pathogens

Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels

(2012) Marcel H. Schulz et al.   BIOINFORMATICS

Transcriptional Silencing of Transposons by Piwi and Maelstrom and Its Impact on Chromatin State and Gene Expression

(2012) Grzegorz Sienski et al.   CELL

Wolbachiain a major African crop pest increases susceptibility to viral disease rather than protects

(2012) Robert I. Graham et al.   ECOLOGY LETTERS

Bayesian Phylogenetics with BEAUti and the BEAST 1.7

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

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

miRDeep*: an integrated application tool for miRNA identification from RNA sequencing data

(2012) Jiyuan An et al.   NUCLEIC ACIDS RESEARCH

GenBank

(2012) Dennis A. Benson et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Association Studies Reveal a Simple Genetic Basis of Resistance to Naturally Coevolving Viruses in Drosophila melanogaster

(2012) Michael M. Magwire et al.   PLoS Genetics

Population Genomics of Sub-Saharan Drosophila melanogaster: African Diversity and Non-African Admixture

(2012) John E. Pool et al.   PLoS Genetics

Convergent Evolution of Argonaute-2 Slicer Antagonism in Two Distinct Insect RNA Viruses

(2012) Joël T. van Mierlo et al.   PLoS Pathogens

Practical Aspects of microRNA Target Prediction

(2011) T. M. Witkos et al.   CURRENT MOLECULAR MEDICINE

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Genetic Diversity, Population Structure and Wolbachia Infection Status in a Worldwide Sample of Drosophila melanogaster and D. simulans Populations

(2011) Rudi L. Verspoor et al.   PLoS One

A DNA Virus of Drosophila

(2011) Robert L. Unckless   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

Drosophila as a genetic model for studying pathogenic human viruses

(2011) Tamara T. Hughes et al.   VIROLOGY

Drosophila Nora virus capsid proteins differ from those of other picorna-like viruses

(2011) Jens-Ola Ekström et al.   VIRUS RESEARCH

Next Generation Sequencing Technologies for Insect Virus Discovery

(2011) Sijun Liu et al.   Viruses-Basel

Exploring the viral world through metagenomics

(2011) Karyna Rosario et al.   Current Opinion in Virology

Natural and Experimental Infection of Caenorhabditis Nematodes by Novel Viruses Related to Nodaviruses

(2011) Marie-Anne Félix et al.   PLOS BIOLOGY

Successive Increases in the Resistance of Drosophila to Viral Infection through a Transposon Insertion Followed by a Duplication

(2011) Michael M. Magwire et al.   PLoS Genetics

Host Phylogeny Determines Viral Persistence and Replication in Novel Hosts

(2011) Ben Longdon et al.   PLoS Pathogens

Viruses, microRNAs, and Host Interactions

(2010) Rebecca L. Skalsky et al.   Annual Review of Microbiology

Disease association mapping in Drosophila can be replicated in the wild

(2010) L. Wilfert et al.   Biology Letters

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

Recent and Recurrent Selective Sweeps of the Antiviral RNAi Gene Argonaute-2 in Three Species of Drosophila

(2010) D. J. Obbard et al.   MOLECULAR BIOLOGY AND EVOLUTION

Recurrent Adaptation in RNA Interference Genes Across the Drosophila Phylogeny

(2010) B. Kolaczkowski et al.   MOLECULAR BIOLOGY AND EVOLUTION

Diverse Pathways Generate MicroRNA-like RNAs and Dicer-Independent Small Interfering RNAs in Fungi

(2010) Heng-Chi Lee et al.   MOLECULAR CELL

Host Range and Specificity of the Drosophila C Virus

(2010) Martin Kapun et al.   PLoS One

Virus discovery by deep sequencing and assembly of virus-derived small silencing RNAs

(2010) Q. Wu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Target RNA-Directed Trimming and Tailing of Small Silencing RNAs

(2010) S. L. Ameres et al.   SCIENCE

Emerging and re-emerging viruses of the honey bee (Apis melliferaL.)

(2010) Elke Genersch et al.   VETERINARY RESEARCH

Deep sequencing analysis of viruses infecting grapevines: Virome of a vineyard

(2010) Beatrix Coetzee et al.   VIROLOGY

Endogenous Viral Elements in Animal Genomes

(2010) Aris Katzourakis et al.   PLoS Genetics

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Drosophila A virus is an unusual RNA virus with a T=3 icosahedral core and permuted RNA-dependent RNA polymerase

(2009) R. L. Ambrose et al.   JOURNAL OF GENERAL VIROLOGY

The Drosophila Nora virus is an enteric virus, transmitted via feces

(2009) Mazen S. Habayeb et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

Bayesian Phylogeography Finds Its Roots

(2009) Philippe Lemey et al.   PLoS Computational Biology

Genetic Variation Affecting Host-Parasite Interactions: Different Genes Affect Different Aspects of Sigma Virus Replication and Transmission in Drosophila melanogaster

(2008) J. Bangham et al.   GENETICS

Rates of evolutionary change in viruses: patterns and determinants

(2008) Siobain Duffy et al.   NATURE REVIEWS GENETICS

Endogenous siRNAs Derived from Transposons and mRNAs in Drosophila Somatic Cells

(2008) M. Ghildiyal et al.   SCIENCE

Wolbachia and Virus Protection in Insects

(2008) L. M. Hedges et al.   SCIENCE

The Bacterial Symbiont Wolbachia Induces Resistance to RNA Viral Infections in Drosophila melanogaster

(2008) Luís Teixeira et al.   PLOS BIOLOGY

The Population Genetics of dN/dS

(2008) Sergey Kryazhimskiy et al.   PLoS Genetics

Metagenomic Analysis of Human Diarrhea: Viral Detection and Discovery

(2008) Stacy R. Finkbeiner et al.   PLoS Pathogens