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

RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference

(2019) Alexey M Kozlov et al.   BIOINFORMATICS

Analysis of paramyxovirus transcription and replication by high-throughput sequencing

(2019) Elizabeth B. Wignall-Fleming et al.   JOURNAL OF VIROLOGY

Complete genome of Aedes aegypti anphevirus in the Aag2 mosquito cell line

(2018) Francesca Di Giallonardo et al.   JOURNAL OF GENERAL VIROLOGY

Evaluation of the genomic diversity of viruses infecting bacteria, archaea and eukaryotes using a common bioinformatic platform: steps towards a unified taxonomy

(2018) Pakorn Aiewsakun et al.   JOURNAL OF GENERAL VIROLOGY

The evolutionary history of vertebrate RNA viruses

(2018) Mang Shi et al.   NATURE

Renewing Felsenstein’s phylogenetic bootstrap in the era of big data

(2018) F. Lemoine et al.   NATURE

Characterization of a novel thogotovirus isolated from Amblyomma testudinarium ticks in Ehime, Japan: A significant phylogenetic relationship to Bourbon virus

(2018) Hiroko Ejiri et al.   VIRUS RESEARCH

Identification of Novel Viruses in Amblyomma americanum , Dermacentor variabilis , and Ixodes scapularis Ticks

(2018) Rafal Tokarz et al.   mSphere

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

(2018) Darren J Obbard   Current Opinion in Virology

Detection and characterization of a novel rhabdovirus in Aedes cantans mosquitoes and evidence for a mosquito-associated new genus in the family Rhabdoviridae

(2017) Nariman Shahhosseini et al.   INFECTION GENETICS AND EVOLUTION

Virus taxonomy in the age of metagenomics

(2017) Peter Simmonds et al.   NATURE REVIEWS MICROBIOLOGY

Molecular Characterization of the Kamese Virus, an Unassigned Rhabdovirus, Isolated from Culex pruina in the Central African Republic

(2017) Huguette Dorine Simo Tchetgna et al.   VECTOR-BORNE AND ZOONOTIC DISEASES

Sinu virus, a novel and divergent orthomyxovirus related to members of the genus Thogotovirus isolated from mosquitoes in Colombia

(2017) María Angélica Contreras-Gutiérrez et al.   VIROLOGY

Unbiased RNA Shotgun Metagenomics in Social and Solitary Wild Bees Detects Associations with Eukaryote Parasites and New Viruses

(2017) Karel Schoonvaere et al.   PLoS One

Novel viruses in salivary glands of mosquitoes from sylvatic Cerrado, Midwestern Brazil

(2017) Andressa Zelenski de Lara Pinto et al.   PLoS One

Transcriptome sequencing identifies novel persistent viruses in herbicide resistant wild-grasses

(2017) Federico Sabbadin et al.   Scientific Reports

Almendravirus : A Proposed New Genus of Rhabdoviruses Isolated from Mosquitoes in Tropical Regions of the Americas

(2016) Maria Angelica Contreras et al.   AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE

Complete genome sequence of Menghai rhabdovirus, a novel mosquito-borne rhabdovirus from China

(2016) Qiang Sun et al.   ARCHIVES OF VIROLOGY

Detection and genome analysis of a novel (dima)rhabdovirus (Riverside virus) from Ochlerotatus sp. mosquitoes in Central Europe

(2016) Gábor Reuter et al.   INFECTION GENETICS AND EVOLUTION

Emergence of a new rhabdovirus associated with mass mortalities in eelpout (Zoarces viviparous) in the Baltic Sea

(2016) C Axén et al.   JOURNAL OF FISH DISEASES

Merida virus, a putative novel rhabdovirus discovered in Culex and Ochlerotatus spp. mosquitoes in the Yucatan Peninsula of Mexico

(2016) Jermilia Charles et al.   JOURNAL OF GENERAL VIROLOGY

Redefining the invertebrate RNA virosphere

(2016) Mang Shi et al.   NATURE

ggtree: anrpackage for visualization and annotation of phylogenetic trees with their covariates and other associated data

(2016) Guangchuang Yu et al.   Methods in Ecology and Evolution

Discovery of Novel Viruses in Mosquitoes from the Zambezi Valley of Mozambique

(2016) Harindranath Cholleti et al.   PLoS One

dendextend: an R package for visualizing, adjusting and comparing trees of hierarchical clustering

(2015) Tal Galili   BIOINFORMATICS

Methods for virus classification and the challenge of incorporating metagenomic sequence data

(2015) P. Simmonds   JOURNAL OF GENERAL VIROLOGY

Regulating edible insects: the challenge of addressing food security, nature conservation, and the erosion of traditional food culture

(2015) A. Halloran et al.   Food Security

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

A Unique Nodavirus with Novel Features: Mosinovirus Expresses Two Subgenomic RNAs, a Capsid Gene of Unknown Origin, and a Suppressor of the Antiviral RNA Interference Pathway

(2014) S. Schuster et al.   JOURNAL OF VIROLOGY

Genomic Characterization and Phylogenetic Position of Two New Species in Rhabdoviridae Infecting the Parasitic Copepod, Salmon Louse (Lepeophtheirus salmonis)

(2014) Arnfinn Lodden Økland et al.   PLoS One

Phylogenomics resolves the timing and pattern of insect evolution

(2014) B. Misof et al.   SCIENCE

Virus discovery and recent insights into virus diversity in arthropods

(2013) Sandra Junglen et al.   CURRENT OPINION IN MICROBIOLOGY

Discovery of a Unique Novel Clade of Mosquito-Associated Bunyaviruses

(2013) Marco Marklewitz et al.   JOURNAL OF VIROLOGY

Enhanced arbovirus surveillance with deep sequencing: Identification of novel rhabdoviruses and bunyaviruses in Australian mosquitoes

(2013) Lark L. Coffey et al.   VIROLOGY

Partitioning the Genetic Diversity of a Virus Family: Approach and Evaluation through a Case Study of Picornaviruses

(2012) C. Lauber et al.   JOURNAL OF VIROLOGY

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

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Bats host major mammalian paramyxoviruses

(2012) Jan Felix Drexler et al.   Nature Communications

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

Jane: a new tool for the cophylogeny reconstruction problem

(2010) Chris Conow et al.   Algorithms for Molecular Biology

A parameter-adaptive dynamic programming approach for inferring cophylogenies

(2010) Daniel Merkle et al.   BMC BIOINFORMATICS

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

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

De novo assembly of human genomes with massively parallel short read sequencing

(2009) R. Li et al.   GENOME RESEARCH

Global trends in emerging infectious diseases

(2008) Kate E. Jones et al.   NATURE