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Tridimensional infiltration of DNA viruses into the host genome shows preferential contact with active chromatin

Author

Listed:
  • Pierrick Moreau

    (Unité Hepacivirus et Immunité Innée
    CNRS, UMR 3569
    Département de Virologie)

  • Axel Cournac

    (Groupe Régulation spatiale des génomes
    CNRS, UMR 3525)

  • Gianna Aurora Palumbo

    (Unité Hepacivirus et Immunité Innée
    CNRS, UMR 3569
    Département de Virologie)

  • Martial Marbouty

    (Groupe Régulation spatiale des génomes
    CNRS, UMR 3525)

  • Shogofa Mortaza

    (Groupe Régulation spatiale des génomes
    CNRS, UMR 3525)

  • Agnes Thierry

    (Groupe Régulation spatiale des génomes
    CNRS, UMR 3525)

  • Stefano Cairo

    (XenTech, Research and Development Department)

  • Marc Lavigne

    (Département de Virologie
    Université Paris Descartes)

  • Romain Koszul

    (Groupe Régulation spatiale des génomes
    CNRS, UMR 3525)

  • Christine Neuveut

    (Unité Hepacivirus et Immunité Innée
    CNRS, UMR 3569
    Département de Virologie)

Abstract

Whether non-integrated viral DNAs distribute randomly or target specific positions within the higher-order architecture of mammalian genomes remains largely unknown. Here we use Hi-C and viral DNA capture (CHi-C) in primary human hepatocytes infected by either hepatitis B virus (HBV) or adenovirus type 5 (Ad5) virus to show that they adopt different strategies in their respective positioning at active chromatin. HBV contacts preferentially CpG islands (CGIs) enriched in Cfp1 a factor required for its transcription. These CGIs are often associated with highly expressed genes (HEG) and genes deregulated during infection. Ad5 DNA interacts preferentially with transcription start sites (TSSs) and enhancers of HEG, as well as genes upregulated during infection. These results show that DNA viruses use different strategies to infiltrate genomic 3D networks and target specific regions. This targeting may facilitate the recruitment of transcription factors necessary for their own replication and contribute to the deregulation of cellular gene expression.

Suggested Citation

  • Pierrick Moreau & Axel Cournac & Gianna Aurora Palumbo & Martial Marbouty & Shogofa Mortaza & Agnes Thierry & Stefano Cairo & Marc Lavigne & Romain Koszul & Christine Neuveut, 2018. "Tridimensional infiltration of DNA viruses into the host genome shows preferential contact with active chromatin," Nature Communications, Nature, vol. 9(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:9:y:2018:i:1:d:10.1038_s41467-018-06739-4
    DOI: 10.1038/s41467-018-06739-4
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    Cited by:

    1. Rubén Barcia-Cruz & David Goudenège & Jorge A. Moura de Sousa & Damien Piel & Martial Marbouty & Eduardo P. C. Rocha & Frédérique Roux, 2024. "Phage-inducible chromosomal minimalist islands (PICMIs), a novel family of small marine satellites of virulent phages," Nature Communications, Nature, vol. 15(1), pages 1-13, December.

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