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Cited by 104Bacteriophages and microbial interactionsPlant and Fungal Interactions ResearchGenomics and Phylogenetic Studies

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Diversity, taxonomy, and evolution of archaeal viruses of the class Caudoviricetes

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Liu, Ying, Demina, Tatiana A., Roux, Simon, Aiewsakun, Pakorn, Kazlauskas, Darius, Simmonds, Peter, Prangishvili, David, Oksanen, Hanna M., Krupovic, Mart·2021·PLOS Biology
DOI 10.1371/journal.pbio.3001442PMC PMC8651126

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Abstract

The archaeal tailed viruses (arTV), evolutionarily related to tailed double-stranded DNA (dsDNA) bacteriophages of the class Caudoviricetes , represent the most common isolates infecting halophilic archaea. Only a handful of these viruses have been genomically characterized, limiting our appreciation of their ecological impacts and evolution. Here, we present 37 new genomes of haloarchaeal tailed virus isolates, more than doubling the current number of sequenced arTVs. Analysis of all 63 available complete genomes of arTVs, which we propose to classify into 14 new families and 3 orders, suggests ancient divergence of archaeal and bacterial tailed viruses and points to an extensive sharing of genes involved in DNA metabolism and counterdefense mechanisms, illuminating common strategies of virus–host interactions with tailed bacteriophages. Coupling of the comparative genomics with the host range analysis on a broad panel of haloarchaeal species uncovered 4 distinct groups of viral tail fiber adhesins controlling the host range expansion. The survey of metagenomes using viral hallmark genes suggests that the global architecture of the arTV community is shaped through recurrent transfers between different biomes, including hypersaline, marine, and anoxic environments.

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Metadata

Authors
Liu, Y., Demina, T. A., Roux, S., Aiewsakun, P., Kazlauskas, D., Simmonds, P., Prangishvili, D., Oksanen, H. M., & Krupovic, M.
Affiliations
  • Institut Pasteur (FR)
  • University of Helsinki (FI)
  • Lawrence Berkeley National Laboratory (US)
  • Mahidol University (TH)
  • Vilnius University (LT)
  • Tbilisi State University (GE)
Corresponding author
Oksanen, Hanna M.
ORCID
Venue
PLOS Biology
Publisher
Public Library of Science (PLoS)
Published
2021-11-09
Volume
19
Issue
11
Pages
e3001442
ISSN
  • 1544-9173 (ISSN-L)
  • 1545-7885
DOI
10.1371/journal.pbio.3001442
PMC
PMC8651126
OpenAlex
W3209974768
Cited by
104
References
3
Citations by year
2026: 18 · 2025: 21 · 2024: 24 · 2023: 25 · 2022: 15 · 2021: 1
FWCI
8.77
Type
journal article
Language
en
Update notices
new_version (2021-12-07)
Open access
Licence
Locations
  • PLoS Biology (publishedVersion, cc-by)
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc-nd)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • eScholarship (California Digital Library) (submittedVersion, cc-by)
  • HAL (submittedVersion, cc-by)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
  • Työväentutkimus Vuosikirja (submittedVersion)
  • OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information) (submittedVersion)
Funders
  • agence nationale de la recherche (ANR-20-CE20-0009-02)
  • horizon 2020 framework programme (685778)
  • Institut Pasteur
  • ella ja georg ehrnroothin säätiö
  • suomen kulttuurirahasto
  • office of science (DE-AC02-05CH11231)
  • wellcome trust (WT108418AIA)
Topics
  • Life Sciences › Immunology and Microbiology › Virology › Bacteriophages and microbial interactions
  • Life Sciences › Immunology and Microbiology › Virology › Plant and Fungal Interactions Research
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
Keywords
archaeal viruses, Caudoviricetes, halophilic archaea, virus taxonomy, viral genome diversity, viral evolution, host-virus interaction, host range, viral community structure, viral metagenomics, viral gene delivery
MeSH terms
DNA, DNA, Viral, Biological Evolution, Mutation, Phylogeny, Prokaryotic Cells, Genetic Variation, Viral Proteins, Genome, Viral, Archaeal Viruses, Host Specificity

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