Viral assemblage composition in Yellowstone acidic hot springs assessed by network analysis

Archaeal Viruses: Diversity, Replication, and Structure

(2014) Nikki Dellas et al.   Annual Review of Virology

The Wonderful World of Archaeal Viruses

(2013) David Prangishvili   Annual Review of Microbiology

Predominant Acidilobus-Like Populations from Geothermal Environments in Yellowstone National Park Exhibit Similar Metabolic Potential in Different Hypoxic Microbial Communities

(2013) Z. J. Jay et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Sequencing platform and library preparation choices impact viral metagenomes

(2013) Sergei A Solonenko et al.   BMC GENOMICS

Comparative metagenomics: natural populations of induced prophages demonstrate highly unique, lower diversity viral sequences

(2013) Lauren D. McDaniel et al.   ENVIRONMENTAL MICROBIOLOGY

A novel single-tailed fusiform Sulfolobus virus STSV2 infecting model Sulfolobus species

(2013) Susanne Erdmann et al.   EXTREMOPHILES

Transcriptional response of bathypelagic marine bacterioplankton to the Deepwater Horizon oil spill

(2013) Adam R Rivers et al.   ISME Journal

Metagenomic Analysis of Viral Communities in (Hado)Pelagic Sediments

(2013) Mitsuhiro Yoshida et al.   PLoS One

The Pacific Ocean Virome (POV): A Marine Viral Metagenomic Dataset and Associated Protein Clusters for Quantitative Viral Ecology

(2013) Bonnie L. Hurwitz et al.   PLoS One

Dynamic Viral Populations in Hypersaline Systems as Revealed by Metagenomic Assembly

(2012) Joanne B. Emerson et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A new proposed taxon for double-stranded DNA viruses, the order “Ligamenvirales”

(2012) David Prangishvili et al.   ARCHIVES OF VIROLOGY

IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth

(2012) Y. Peng et al.   BIOINFORMATICS

Microbial community structure and sulfur biogeochemistry in mildly-acidic sulfidic geothermal springs in Yellowstone National Park

(2012) R.E. Macur et al.   Geobiology

Identification of Novel Positive-Strand RNA Viruses by Metagenomic Analysis of Archaea-Dominated Yellowstone Hot Springs

(2012) B. Bolduc et al.   JOURNAL OF VIROLOGY

Grinder: a versatile amplicon and shotgun sequence simulator

(2012) Florent E. Angly et al.   NUCLEIC ACIDS RESEARCH

Computational tools for viral metagenomics and their application in clinical research

(2012) L. Fancello et al.   VIROLOGY

VIROME: a standard operating procedure for analysis of viral metagenome sequences

(2012) K. Eric Wommack et al.   Standards in Genomic Sciences

Metagenomics and future perspectives in virus discovery

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

Microbial Iron Cycling in Acidic Geothermal Springs of Yellowstone National Park: Integrating Molecular Surveys, Geochemical Processes, and Isolation of Novel Fe-Active Microorganisms

(2012) Mark A. Kozubal et al.   Frontiers in Microbiology

Meta-IDBA: a de Novo assembler for metagenomic data

(2011) Y. Peng et al.   BIOINFORMATICS

Metavir: a web server dedicated to virome analysis

(2011) Simon Roux et al.   BIOINFORMATICS

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

Metagenomic analysis of DNA viruses in a wastewater treatment plant in tropical climate

(2011) Hideyuki Tamaki et al.   ENVIRONMENTAL MICROBIOLOGY

Provirus Induction in Hyperthermophilic Archaea: Characterization of Aeropyrum pernix Spindle-Shaped Virus 1 and Aeropyrum pernix Ovoid Virus 1

(2011) T. Mochizuki et al.   JOURNAL OF BACTERIOLOGY

Quasispecies as a matter of fact: Viruses and beyond

(2011) Samuel Ojosnegros et al.   VIRUS RESEARCH

Exploring the viral world through metagenomics

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

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Artificial and natural duplicates in pyrosequencing reads of metagenomic data

(2010) Beifang Niu et al.   BMC BIOINFORMATICS

Familial Relationships in Hyperthermo- and Acidophilic Archaeal Viruses

(2010) L. J. Happonen et al.   JOURNAL OF VIROLOGY

Metagenomes from High-Temperature Chemotrophic Systems Reveal Geochemical Controls on Microbial Community Structure and Function

(2010) William P. Inskeep et al.   PLoS One

A simple and efficient method for concentration of ocean viruses by chemical flocculation

(2010) Seth G. John et al.   Environmental Microbiology Reports

Laboratory procedures to generate viral metagenomes

(2009) Rebecca V Thurber et al.   Nature Protocols

The GAAS Metagenomic Tool and Its Estimations of Viral and Microbial Average Genome Size in Four Major Biomes

(2009) Florent E. Angly et al.   PLoS Computational Biology

Assembly of Viral Metagenomes from Yellowstone Hot Springs

(2008) T. Schoenfeld et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Fast unfolding of communities in large networks

(2008) Vincent D Blondel et al.   JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT

The Sorcerer II Global Ocean Sampling Expedition: Metagenomic Characterization of Viruses within Aquatic Microbial Samples

(2008) Shannon J. Williamson et al.   PLoS One