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

Improvements to pairwise sequence comparison (PASC): a genome-based web tool for virus classification

(2014) Yiming Bao et al.   ARCHIVES OF VIROLOGY

Metagenomic analysis of the shrew enteric virome reveals novel viruses related to human stool-associated viruses

(2014) M. Sasaki et al.   JOURNAL OF GENERAL VIROLOGY

Consensus proposals for classification of the family Hepeviridae

(2014) D. B. Smith et al.   JOURNAL OF GENERAL VIROLOGY

Three Novel Virophage Genomes Discovered from Yellowstone Lake Metagenomes

(2014) Jinglie Zhou et al.   JOURNAL OF VIROLOGY

High Rates of Infection with Novel Enterovirus Variants in Wild Populations of Mandrills and Other Old World Monkey Species

(2014) D. V. Nguyen et al.   JOURNAL 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

Global comparison of multiple-segmented viruses in 12-dimensional genome space

(2014) Hsin-Hsiung Huang et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Full Genome Virus Detection in Fecal Samples Using Sensitive Nucleic Acid Preparation, Deep Sequencing, and a Novel Iterative Sequence Classification Algorithm

(2014) Matthew Cotten et al.   PLoS One

Carrot yellow leaf virus Is Associated with Carrot Internal Necrosis

(2014) Ian P. Adams et al.   PLoS One

Preservation of viral genomes in 700-y-old caribou feces from a subarctic ice patch

(2014) Terry Fei Fan Ng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Chlorovirus ATCV-1 is part of the human oropharyngeal virome and is associated with changes in cognitive functions in humans and mice

(2014) Robert H. Yolken et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Densovirus associated with sea-star wasting disease and mass mortality

(2014) Ian Hewson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cell Tropism Predicts Long-term Nucleotide Substitution Rates of Mammalian RNA Viruses

(2014) Allison L. Hicks et al.   PLoS Pathogens

Recombination in the evolution of human rhinovirus genomes

(2013) Chloe L. McIntyre et al.   ARCHIVES OF VIROLOGY

The family Parvoviridae

(2013) Susan F. Cotmore et al.   ARCHIVES OF VIROLOGY

Previously unknown and highly divergent ssDNA viruses populate the oceans

(2013) Jessica M Labonté et al.   ISME Journal

Real Time Classification of Viruses in 12 Dimensions

(2013) Chenglong Yu et al.   PLoS One

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

(2012) Karyna Rosario et al.   ARCHIVES OF VIROLOGY

Toward Genetics-Based Virus Taxonomy: Comparative Analysis of a Genetics-Based Classification and the Taxonomy of Picornaviruses

(2012) C. Lauber et al.   JOURNAL OF 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

Genetics-Based Classification of Filoviruses Calls for Expanded Sampling of Genomic Sequences

(2012) Chris Lauber et al.   Viruses-Basel

PAirwise Sequence Comparison (PASC) and Its Application in the Classification of Filoviruses

(2012) Yiming Bao et al.   Viruses-Basel

A Novel Rhabdovirus Associated with Acute Hemorrhagic Fever in Central Africa

(2012) Gilda Grard et al.   PLoS Pathogens

The Fecal Virome of Pigs on a High-Density Farm

(2011) T. Shan et al.   JOURNAL OF VIROLOGY

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Why do RNA viruses recombine?

(2011) Etienne Simon-Loriere et al.   NATURE REVIEWS MICROBIOLOGY

Giant viruses in the environment: their origins and evolution

(2011) Takashi Yamada   Current Opinion in Virology

Proposal for a revised taxonomy of the family Filoviridae: classification, names of taxa and viruses, and virus abbreviations

(2010) Jens H. Kuhn et al.   ARCHIVES OF VIROLOGY

Giant Viruses: Conflicts in Revisiting the Virus Concept

(2010) Patrick Forterre   INTERVIROLOGY

New dimensions of the virus world discovered through metagenomics

(2009) David M. Kristensen et al.   TRENDS IN MICROBIOLOGY

Picornavirales, a proposed order of positive-sense single-stranded RNA viruses with a pseudo-T = 3 virion architecture

(2008) Olivier Le Gall et al.   ARCHIVES OF VIROLOGY

Pathogenic flaviviruses

(2008) EA Gould et al.   LANCET

Rates of evolutionary change in viruses: patterns and determinants

(2008) Siobain Duffy et al.   NATURE REVIEWS GENETICS

Clonal Integration of a Polyomavirus in Human Merkel Cell Carcinoma

(2008) H. Feng et al.   SCIENCE