The chromatin network helps prevent cancer-associated mutagenesis at transcription-replication conflicts

Aleix Bayona-Feliu (), Emilia Herrera-Moyano, Nibal Badra-Fajardo, Iván Galván-Femenía, María Eugenia Soler-Oliva and Andrés Aguilera ()
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Aleix Bayona-Feliu: Universidad de Sevilla-CSIC-Universidad Pablo de Olavide
Emilia Herrera-Moyano: Universidad de Sevilla-CSIC-Universidad Pablo de Olavide
Nibal Badra-Fajardo: Universidad de Sevilla-CSIC-Universidad Pablo de Olavide
Iván Galván-Femenía: The Barcelona Institute of Science and Technology (BIST)
María Eugenia Soler-Oliva: Universidad de Sevilla-CSIC-Universidad Pablo de Olavide
Andrés Aguilera: Universidad de Sevilla-CSIC-Universidad Pablo de Olavide

Nature Communications, 2023, vol. 14, issue 1, 1-16

Abstract: Abstract Genome instability is a feature of cancer cells, transcription being an important source of DNA damage. This is in large part associated with R-loops, which hamper replication, especially at head-on transcription-replication conflicts (TRCs). Here we show that TRCs trigger a DNA Damage Response (DDR) involving the chromatin network to prevent genome instability. Depletion of the key chromatin factors INO80, SMARCA5 and MTA2 results in TRCs, fork stalling and R-loop-mediated DNA damage which mostly accumulates at S/G2, while histone H3 Ser10 phosphorylation, a mark of chromatin compaction, is enriched at TRCs. Strikingly, TRC regions show increased mutagenesis in cancer cells with signatures of homologous recombination deficiency, transcription-coupled nucleotide excision repair (TC-NER) and of the AID/APOBEC cytidine deaminases, being predominant at head-on collisions. Thus, our results support that the chromatin network prevents R-loops and TRCs from genomic instability and mutagenic signatures frequently associated with cancer.

Date: 2023
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DOI: 10.1038/s41467-023-42653-0

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