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DndCDEA-PbeABCD system

traitmech:000224 · CLASS · PROPOSED

A phosphorothioate defense system in which an organism possesses a DndCDEA-PbeABCD locus that pairs DndCDEA-mediated host-DNA phosphorothioation with PbeABCD-dependent targeting of non-phosphorothioated viral DNA to inhibit viral DNA replication.

Trait evidence (8)

  • DOI:10.1038/s41467-019-09390-9
    a new archaeal defence system that involves DndCDEA-specific DNA phosphorothioate (PT) modification and the PbeABCD-mediated halt of virus propagation via inhibition of DNA replication

    Xiong et al. name the DndCDEA-PbeABCD architecture as an archaeal PT-based antiviral system.

  • DOI:10.1038/s41467-019-09390-9
    can defend against viral attack together with pbeABCD, a conserved 4-gene cassette sharing no sequence homology with DndFGH

    Xiong et al. support separating PbeABCD systems from canonical Dnd systems whose restriction module is DndFGH.

  • DOI:10.1038/s41467-019-09390-9
    DndCDEA-PbeABCD confers protection against the haloarchaeal virus SNJ1

    Xiong et al. experimentally support the antiviral output of the Haloterrigena jeotgali A29 DndCDEA-PbeABCD locus after heterologous expression in CJ7-F cells.

  • DOI:10.1038/s41467-019-09390-9
    PbeABCD exerted antiviral activity depending on the presence of PT modifications

    Xiong et al. connect PbeABCD antiviral restriction to phosphorothioation-dependent self/non-self discrimination.

  • DOI:10.1038/s41467-019-09390-9
    the subsequent viral genome replication process is significantly inhibited by the DndCDEA-PbeABCD system

    Xiong et al. directly connect DndCDEA-PbeABCD to inhibition of SNJ1 viral DNA replication after viral DNA injection.

  • DOI:10.1038/s41467-019-09390-9
    does not involve viral DNA degradation or cleavage, ruling out the involvement of currently known defence mechanisms

    Xiong et al. bound the PbeABCD mechanism away from the DNA-cleavage mechanisms of canonical restriction systems.

  • DOI:10.1134/S0006297921030081
    instead of the dndFGH, the restriction function is performed by the pbeABCD gene cluster

    Isaev et al. summarize pbeABCD as the restriction branch paired with archaeal DndCDEA phosphorothioation.

  • DOI:10.1134/S0006297921030081
    The dndCDEA-pbeABCD from Haloterrigena jeotgali was shown to provide antiviral defense

    Isaev et al. independently summarize the Haloterrigena jeotgali DndCDEA-PbeABCD locus as an antiviral defense system.

DndCDEA-PbeABCD systems halt archaeal viral DNA replication

Evidence-backed process sketch linking a DndCDEA-PbeABCD locus to host DNA phosphorothioation, PT-dependent PbeABCD antiviral activity, and inhibited replication of non-phosphorothioated viral DNA.

NONMECHANISTIC · The graph captures DndCDEA-PbeABCD restriction at the system level without asserting one universal host taxon, PT motif outside characterized haloarchaeal systems, PbeABCD subunit cycle, direct viral DNA cleavage, or relationship to bacterial DndFGH and Ssp-family systems.

DndCDEA-PbeABCD systems halt archaeal viral DNA replication Interactive directed graph showing evidence-backed causal relationships for DndCDEA-PbeABCD system.

Edge evidence

  • DndCDEA-PbeABCD locus contributes to DndCDEA DNA phosphorothioation RO:0002326

    The DndCDEA modification module installs phosphorothioate marks on archaeal host DNA.

    • DOI:10.1038/s41467-019-09390-9 involves DndCDEA-specific DNA phosphorothioate (PT) modification Xiong et al. support DndCDEA-dependent host DNA phosphorothioation in the PbeABCD-coupled system.
  • DndCDEA-PbeABCD locus contributes to PbeABCD PT-dependent virus targeting RO:0002326

    DndCDEA-PbeABCD loci pair host-DNA phosphorothioation with PbeABCD antiviral activity.

    • DOI:10.1038/s41467-019-09390-9 can defend against viral attack together with pbeABCD Xiong et al. support the paired DndCDEA modification and PbeABCD effector architecture.
  • DndCDEA DNA phosphorothioation contributes to PbeABCD PT-dependent virus targeting RO:0002326

    PbeABCD antiviral activity depends on the presence of PT marks rather than direct PbeABCD-DndCDEA protein interactions.

    • DOI:10.1038/s41467-019-09390-9 depending on the presence of PT modifications Xiong et al. distinguish PT-dependent PbeABCD restriction from direct modification-effector protein coupling.
  • PbeABCD PT-dependent virus targeting mitigates viral DNA replication METPO:2007407

    PbeABCD-dependent targeting inhibits replication of non-phosphorothioated viral DNA.

    • DOI:10.1038/s41467-019-09390-9 the subsequent viral genome replication process is significantly inhibited Xiong et al. observed impaired SNJ1 genome replication in cells expressing DndCDEA-PbeABCD.
  • PbeABCD PT-dependent virus targeting confers DndCDEA-PbeABCD system METPO:2007700

    PT-dependent PbeABCD antiviral activity realizes the DndCDEA-PbeABCD defense trait.

    • DOI:10.1038/s41467-019-09390-9 DndCDEA-PbeABCD confers resistance against invading viruses Xiong et al. support PbeABCD-mediated restriction as the system's antiviral output.
  • DndCDEA-PbeABCD system is a phosphorothioate defense system rdfs:subClassOf

    DndCDEA-PbeABCD possession is a phosphorothioate-defense-system trait.

    • DOI:10.1134/S0006297921030081 instead of the dndFGH, the restriction function is performed by the pbeABCD gene cluster Isaev et al. place PbeABCD in the family of PT defense systems while distinguishing it from DndFGH.

Provenance

Identifier source
TraitMech local identifier
Definition source
DOI:10.1038/s41467-019-09390-9

Parent traits (1)

Synonyms (1)

  • PbeABCD-mediated PT defence system EXACT_SYNONYM · DOI:10.1038/s41467-019-09390-9

kg-microbe context

No kg-microbe node embedding matched this record in the 2026-04-25 deepwalk.

Canonical examples (1)

Organisms cited as exemplars of this trait. Taxon ids are NCBITaxon and link out to the NCBI record.

  • Natrinema thermotolerans A29 NCBITaxon:1455609 DOI:10.1038/s41467-019-09390-9 Xiong et al. identified the dndCDEA-pbeABCD locus in Haloterrigena jeotgali A29 and showed that the cloned locus confers DndCDEA- and PbeABCD-dependent resistance to the haloarchaeal virus SNJ1.

Curation history

  1. · MINTED_TRAITMECH_ID · codex

    Minted DndCDEA-PbeABCD system as a DOI-backed GENOMICS TraitRecord under the phosphorothioate defense system parent after an ignored-and-hidden duplicate review found no exact live TraitMech, METPO, or prior proposal record; the replacement placeholder is reserved in proposals/metpo_traitmech_v101.