IDEAS home Printed from https://ideas.repec.org/a/nat/natcom/v8y2017i1d10.1038_ncomms15656.html
   My bibliography  Save this article

A damaged genome’s transcriptional landscape through multilayered expression profiling around in situ-mapped DNA double-strand breaks

Author

Listed:
  • Fabio Iannelli

    (IFOM, The FIRC Institute of Molecular Oncology)

  • Alessandro Galbiati

    (IFOM, The FIRC Institute of Molecular Oncology)

  • Ilaria Capozzo

    (IGM (Istituto di Genetica Molecolare)-CNR (Consiglio Nazionale delle Ricerche))

  • Quan Nguyen

    (RIKEN Center for Life Science Technologies)

  • Brian Magnuson

    (University of Michigan)

  • Flavia Michelini

    (IFOM, The FIRC Institute of Molecular Oncology)

  • Giuseppina D’Alessandro

    (IFOM, The FIRC Institute of Molecular Oncology)

  • Matteo Cabrini

    (IGM (Istituto di Genetica Molecolare)-CNR (Consiglio Nazionale delle Ricerche))

  • Marco Roncador

    (IGM (Istituto di Genetica Molecolare)-CNR (Consiglio Nazionale delle Ricerche))

  • Sofia Francia

    (IFOM, The FIRC Institute of Molecular Oncology
    IGM (Istituto di Genetica Molecolare)-CNR (Consiglio Nazionale delle Ricerche))

  • Nicola Crosetto

    (Science for Life Laboratory, Karolinska Institutet)

  • Mats Ljungman

    (University of Michigan)

  • Piero Carninci

    (RIKEN Center for Life Science Technologies)

  • Fabrizio d’Adda di Fagagna

    (IFOM, The FIRC Institute of Molecular Oncology
    IGM (Istituto di Genetica Molecolare)-CNR (Consiglio Nazionale delle Ricerche))

Abstract

Of the many types of DNA damage, DNA double-strand breaks (DSBs) are probably the most deleterious. Mounting evidence points to an intricate relationship between DSBs and transcription. A cell system in which the impact on transcription can be investigated at precisely mapped genomic DSBs is essential to study this relationship. Here in a human cell line, we map genome-wide and at high resolution the DSBs induced by a restriction enzyme, and we characterize their impact on gene expression by four independent approaches by monitoring steady-state RNA levels, rates of RNA synthesis, transcription initiation and RNA polymerase II elongation. We consistently observe transcriptional repression in proximity to DSBs. Downregulation of transcription depends on ATM kinase activity and on the distance from the DSB. Our study couples for the first time, to the best of our knowledge, high-resolution mapping of DSBs with multilayered transcriptomics to dissect the events shaping gene expression after DSB induction at multiple endogenous sites.

Suggested Citation

  • Fabio Iannelli & Alessandro Galbiati & Ilaria Capozzo & Quan Nguyen & Brian Magnuson & Flavia Michelini & Giuseppina D’Alessandro & Matteo Cabrini & Marco Roncador & Sofia Francia & Nicola Crosetto & , 2017. "A damaged genome’s transcriptional landscape through multilayered expression profiling around in situ-mapped DNA double-strand breaks," Nature Communications, Nature, vol. 8(1), pages 1-12, August.
  • Handle: RePEc:nat:natcom:v:8:y:2017:i:1:d:10.1038_ncomms15656
    DOI: 10.1038/ncomms15656
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/ncomms15656
    File Function: Abstract
    Download Restriction: no

    File URL: https://libkey.io/10.1038/ncomms15656?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Daniel Gómez-Cabello & George Pappas & Diana Aguilar-Morante & Christoffel Dinant & Jiri Bartek, 2022. "CtIP-dependent nascent RNA expression flanking DNA breaks guides the choice of DNA repair pathway," Nature Communications, Nature, vol. 13(1), pages 1-15, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:natcom:v:8:y:2017:i:1:d:10.1038_ncomms15656. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    We have no bibliographic references for this item. You can help adding them by using this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.