ArticleFrontiers in microbiology2015
Combining genomic sequencing methods to explore viral diversity and reveal potential virus-host interactions.
Article in Frontiers in microbiology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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Who cites it
37 citing papers in PubMed, 71 citations in OpenAlex.
- Cryo-EM resolves the structure of the archaeal dsDNA virus HFTV1 from head to tail.Science advances · 2025Article
- Marine Autographiviridae phages exhibit high genetic diversity and global-scale biogeographic patterns.Communications biology · 2025Article
- Genomic diversity and biogeographic distributions of a novel lineage of bacteriophages that infect marine OM43 bacteria.Microbiology spectrum · 2023Article
- MArVD2: a machine learning enhanced tool to discriminate between archaeal and bacterial viruses in viral datasets.ISME communications · 2023Article
- Ocean-wide comparisons of mesopelagic planktonic community structures.ISME communications · 2023Article
- Diversity, taxonomy, and evolution of archaeal viruses of the class Caudoviricetes.PLoS biology · 2021Article
- The Fennoscandian Shield deep terrestrial virosphere suggests slow motion 'boom and burst' cycles.Communications biology · 2021Article
- Ammonia-oxidizing archaea in biological interactions.Journal of microbiology (Seoul, Korea) · 2021Review
- Microbial Ecology of Oxygen Minimum Zones Amidst Ocean Deoxygenation.Frontiers in microbiology · 2021Review
- Diverse and unique viruses discovered in the surface water of the East China Sea.BMC genomics · 2020Article
- Double-stranded DNA virioplankton dynamics and reproductive strategies in the oligotrophic open ocean water column.The ISME journal · 2020Article
- Visualization of Viral Infection Dynamics in a Unicellular Eukaryote and Quantification of Viral Production Using Virus FluorescenceFrontiers in microbiology · 2020Article
- Comparative Genomics and Evolutionary Analysis of RNA-Binding Proteins of the CsrA Family in the GenusFrontiers in molecular biosciences · 2020Article
- Contributions of single-cell genomics to our understanding of planktonic marine archaea.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2019Review
- Spindle-shaped viruses infect marine ammonia-oxidizing thaumarchaea.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Integrated mobile genetic elements in Thaumarchaeota.Environmental microbiology · 2019Article
- New archaeal viruses discovered by metagenomic analysis of viral communities in enrichment cultures.Environmental microbiology · 2019Article
- Host-hijacking and planktonic piracy: how phages command the microbial high seas.Virology journal · 2019Review
- A Review on Viral Metagenomics in Extreme Environments.Frontiers in microbiology · 2019Review
- Phage puppet masters of the marine microbial realm.Nature microbiology · 2018Review
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Viral diversity and virus-host interactions in oxygen-starved regions of the ocean, also known as oxygen minimum zones (OMZs), remain relatively unexplored. Microbial community metabolism in OMZs alters nutrient and energy flow through marine food webs, resulting in biological nitrogen loss and greenhouse gas production. Thus, viruses infecting OMZ microbes have the potential to modulate community metabolism with resulting feedback on ecosystem function. Here, we describe viral communities inhabiting oxic surface (10 m) and oxygen-starved basin (200 m) waters of Saanich Inlet, a seasonally anoxic fjord on the coast of Vancouver Island, British Columbia using viral metagenomics and complete viral fosmid sequencing on samples collected between April 2007 and April 2010. Of 6459 open reading frames (ORFs) predicted across all 34 viral fosmids, 77.6% (n = 5010) had no homology to reference viral genomes. These fosmids recruited a higher proportion of viral metagenomic sequences from Saanich Inlet than from nearby northeastern subarctic Pacific Ocean (Line P) waters, indicating differences in the viral communities between coastal and open ocean locations. While functional annotations of fosmid ORFs were limited, recruitment to NCBI's non-redundant "nr" database and publicly available single-cell genomes identified putative viruses infecting marine thaumarchaeal and SUP05 proteobacteria to provide potential host linkages with relevance to coupled biogeochemical cycling processes in OMZ waters. Taken together, these results highlight the power of coupled analyses of multiple sequence data types, such as viral metagenomic and fosmid sequence data with prokaryotic single cell genomes, to chart viral diversity, elucidate genomic and ecological contexts for previously unclassifiable viral sequences, and identify novel host interactions in natural and engineered ecosystems.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.