Metagenomic analysis of the viral community in Namib Desert hypoliths

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

(2013) Dana Willner et al.   BIOESSAYS

A bioinformatic analysis of ribonucleotide reductase genes in phage genomes and metagenomes

(2013) Bhakti Dwivedi et al.   BMC EVOLUTIONARY BIOLOGY

Sequencing platform and library preparation choices impact viral metagenomes

(2013) Sergei A Solonenko et al.   BMC GENOMICS

Single-cell and population level viral infection dynamics revealed by phageFISH, a method to visualize intracellular and free viruses

(2013) Elke Allers et al.   ENVIRONMENTAL MICROBIOLOGY

Hypolithic and soil microbial community assembly along an aridity gradient in the Namib Desert

(2013) Francesca Stomeo et al.   EXTREMOPHILES

Evidence for successional development in Antarctic hypolithic bacterial communities

(2013) Thulani P Makhalanyane et al.   ISME Journal

Global morphological analysis of marine viruses shows minimal regional variation and dominance of non-tailed viruses

(2013) Jennifer R Brum 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

Improving the coverage of the cyanobacterial phylum using diversity-driven genome sequencing

(2013) P. M. Shih et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Twelve previously unknown phage genera are ubiquitous in global oceans

(2013) K. Holmfeldt et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Physical ecology of hypolithic communities in the central Namib Desert: The role of fog, rain, rock habitat, and light

(2013) Kimberley A. Warren-Rhodes et al.   Journal of Geophysical Research-Biogeosciences

Dynamic Viral Populations in Hypersaline Systems as Revealed by Metagenomic Assembly

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

Virus genes in Arctic marine bacteria identified by metagenomic analysis

(2012) MT Cottrell et al.   AQUATIC MICROBIAL ECOLOGY

A novel virus genome discovered in an extreme environment suggests recombination between unrelated groups of RNA and DNA viruses

(2012) Geoffrey S Diemer et al.   Biology Direct

Marine Viruses Exploit Their Host's Two-Component Regulatory System in Response to Resource Limitation

(2012) Qinglu Zeng et al.   CURRENT BIOLOGY

Evaluation of methods to concentrate and purify ocean virus communities through comparative, replicated metagenomics

(2012) Bonnie L. Hurwitz et al.   ENVIRONMENTAL MICROBIOLOGY

Hypolithic microbial communities: between a rock and a hard place

(2012) Yuki Chan et al.   ENVIRONMENTAL MICROBIOLOGY

Viruses in the desert: a metagenomic survey of viral communities in four perennial ponds of the Mauritanian Sahara

(2012) Laura Fancello et al.   ISME Journal

Gobabeb – 50 years of Namib Desert research

(2012) J.R. Henschel et al.   JOURNAL OF ARID ENVIRONMENTS

The nature of moisture at Gobabeb, in the central Namib Desert

(2012) F.D. Eckardt et al.   JOURNAL OF ARID ENVIRONMENTS

Microbial colonization and controls in dryland systems

(2012) Stephen B. Pointing et al.   NATURE REVIEWS MICROBIOLOGY

Assessing the Diversity and Specificity of Two Freshwater Viral Communities through Metagenomics

(2012) Simon Roux et al.   PLoS One

Metagenomic Exploration of Viruses throughout the Indian Ocean

(2012) Shannon J. Williamson et al.   PLoS One

Ocean viruses: Rigorously evaluating the metagenomic sample-to-sequence pipeline

(2012) Melissa B. Duhaime et al.   VIROLOGY

Evidence of species recruitment and development of hot desert hypolithic communities

(2012) Thulani P. Makhalanyane et al.   Environmental Microbiology Reports

Contrasting Life Strategies of Viruses that Infect Photo- and Heterotrophic Bacteria, as Revealed by Viral Tagging

(2012) L. Deng et al.   mBio

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

Development ofphoHas a Novel Signature Gene for Assessing Marine Phage Diversity

(2011) Dawn B. Goldsmith et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Metavir: a web server dedicated to virome analysis

(2011) Simon Roux et al.   BIOINFORMATICS

Easyfig: a genome comparison visualizer

(2011) M. J. Sullivan et al.   BIOINFORMATICS

Hypolithic microbial communities of quartz rocks from Miers Valley, McMurdo Dry Valleys, Antarctica

(2011) Nuraan Khan et al.   POLAR BIOLOGY

Phage auxiliary metabolic genes and the redirection of cyanobacterial host carbon metabolism

(2011) L. R. Thompson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ancient origins determine global biogeography of hot and cold desert cyanobacteria

(2011) Justin Bahl et al.   Nature Communications

Exploring the viral world through metagenomics

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

Identifying Active Phage Lysins through Functional Viral Metagenomics

(2010) J. E. Schmitz et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Genomic analysis of oceanic cyanobacterial myoviruses compared with T4-like myoviruses from diverse hosts and environments

(2010) Matthew B. Sullivan et al.   ENVIRONMENTAL MICROBIOLOGY

Cyanobacteria and chloroflexi-dominated hypolithic colonization of quartz at the hyper-arid core of the Atacama Desert, Chile

(2010) Donnabella C. Lacap et al.   EXTREMOPHILES

Viral and microbial community dynamics in four aquatic environments

(2010) Beltran Rodriguez-Brito et al.   ISME Journal

Hypolithic Microbial Community of Quartz Pavement in the High-Altitude Tundra of Central Tibet

(2010) Fiona K. Y. Wong et al.   MICROBIAL ECOLOGY

FragGeneScan: predicting genes in short and error-prone reads

(2010) Mina Rho et al.   NUCLEIC ACIDS RESEARCH

Community cyberinfrastructure for Advanced Microbial Ecology Research and Analysis: the CAMERA resource

(2010) S. Sun et al.   NUCLEIC ACIDS RESEARCH

Distribution and abiotic influences on hypolithic microbial communities in an Antarctic Dry Valley

(2010) Don A. Cowan et al.   POLAR BIOLOGY

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

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Analysis and comparison of very large metagenomes with fast clustering and functional annotation

(2009) Weizhong Li   BMC BIOINFORMATICS

RNRdb, a curated database of the universal enzyme family ribonucleotide reductase, reveals a high level of misannotation in sequences deposited to Genbank

(2009) Daniel Lundin et al.   BMC GENOMICS

Current insights into phage biodiversity and biogeography

(2009) Rebecca Vega Thurber   CURRENT OPINION IN MICROBIOLOGY

The genome and structural proteome of an ocean siphovirus: a new window into the cyanobacterial ‘mobilome’

(2009) Matthew B. Sullivan et al.   ENVIRONMENTAL MICROBIOLOGY

High Diversity of the Viral Community from an Antarctic Lake

(2009) A. Lopez-Bueno et al.   SCIENCE

Functional viral metagenomics and the next generation of molecular tools

(2009) Thomas Schoenfeld et al.   TRENDS IN MICROBIOLOGY

Statistical Methods for Detecting Differentially Abundant Features in Clinical Metagenomic Samples

(2009) James Robert White et al.   PLoS Computational Biology

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

Amplification of Uncultured Single-Stranded DNA Viruses from Rice Paddy Soil

(2008) K.-H. Kim et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes

(2008) F Meyer et al.   BMC BIOINFORMATICS

MetaGeneAnnotator: Detecting Species-Specific Patterns of Ribosomal Binding Site for Precise Gene Prediction in Anonymous Prokaryotic and Phage Genomes

(2008) H. Noguchi et al.   DNA RESEARCH

Characterization of a novel portal protein from deep-sea thermophilic bacteriophage GVE2

(2008) Yiqian Wang et al.   GENE

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

An examination of the bacteriophages and bacteria of the Namib desert

(2008) Eric Prestel et al.   JOURNAL OF MICROBIOLOGY

Phylogeny.fr: robust phylogenetic analysis for the non-specialist

(2008) A. Dereeper et al.   NUCLEIC ACIDS RESEARCH

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

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

Phages across the biosphere: contrasts of viruses in soil and aquatic environments

(2008) Sharath Srinivasiah et al.   RESEARCH IN MICROBIOLOGY

Ecophysiology of atmospheric moisture in the Namib Desert

(2007) Joh R. Henschel et al.   ATMOSPHERIC RESEARCH