Computational approaches to predict bacteriophage–host relationships

RA Edwards, K McNair, K Faust, J Raes… - FEMS microbiology …, 2016 - academic.oup.com
Metagenomics has changed the face of virus discovery by enabling the accurate
identification of viral genome sequences without requiring isolation of the viruses. As a …

Diversity, evolutionary contribution and ecological roles of aquatic viruses

QY Zhang, JF Gui - Science China Life Sciences, 2018 - Springer
Aquatic viruses include infected viruses in aquatic animals, plants and microorganisms, and
free-floating viruses (virioplankton) in water environments. In the last three decades, a huge …

Expanding the marine virosphere using metagenomics

CM Mizuno, F Rodriguez-Valera, NE Kimes… - PLoS genetics, 2013 - journals.plos.org
Viruses infecting prokaryotic cells (phages) are the most abundant entities of the biosphere
and contain a largely uncharted wealth of genomic diversity. They play a critical role in the …

Assembly-free single-molecule sequencing recovers complete virus genomes from natural microbial communities

J Beaulaurier, E Luo, JM Eppley, P Den Uyl… - Genome …, 2020 - genome.cshlp.org
Viruses are the most abundant biological entities on Earth and play key roles in host
ecology, evolution, and horizontal gene transfer. Despite recent progress in viral …

Phage-centric ecological interactions in aquatic ecosystems revealed through ultra-deep metagenomics

VS Kavagutti, AŞ Andrei, M Mehrshad, MM Salcher… - Microbiome, 2019 - Springer
The persistent inertia in the ability to culture environmentally abundant microbes from
aquatic ecosystems represents an obstacle in disentangling the complex web of ecological …

Genomes of abundant and widespread viruses from the deep ocean

CM Mizuno, R Ghai, A Saghaï, P López-García… - MBio, 2016 - Am Soc Microbiol
The deep sea is a massive, largely oligotrophic ecosystem, stretched over nearly 65% of the
planet's surface. Deep-sea planktonic communities are almost completely dependent upon …

Genome‐resolved viral and cellular metagenomes revealed potential key virus‐host interactions in a deep freshwater lake

Y Okazaki, Y Nishimura, T Yoshida… - Environmental …, 2019 - Wiley Online Library
Metagenomics has dramatically expanded the known virosphere, but freshwater viral
diversity and their ecological interaction with hosts remain poorly understood. Here, we …

Marine phage genomics: the tip of the iceberg

B Perez Sepulveda, T Redgwell… - FEMS Microbiology …, 2016 - academic.oup.com
Marine viruses are the most abundant biological entity in the oceans, the majority of which
infect bacteria and are known as bacteriophages. Yet, the bulk of bacteriophages form part …

Combining genomic sequencing methods to explore viral diversity and reveal potential virus-host interactions

CET Chow, DM Winget, RA White III… - Frontiers in …, 2015 - frontiersin.org
Viral diversity and virus-host interactions in oxygen-starved regions of the ocean, also
known as oxygen minimum zones (OMZs), remain relatively unexplored. Microbial …

Associations between picocyanobacterial ecotypes and cyanophage host genes across ocean basins and depth

CA Fuchsman, DG Prieto, MD Hays, JA Cram - PeerJ, 2023 - peerj.com
Background Cyanophages, viruses that infect cyanobacteria, are globally abundant in the
ocean's euphotic zone and are a potentially important cause of mortality for marine …