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Mechanism of trinucleotide repeat expansion by MutSβ-MutLγ and contraction by FAN1

Author

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  • Issam Senoussi

    (Università della Svizzera italiana (USI)
    Eidgenössische Technische Hochschule (ETH))

  • Valentina Mengoli

    (Università della Svizzera italiana (USI))

  • Arianna Cerana

    (Università della Svizzera italiana (USI))

  • Andrea Rinaldi

    (Università della Svizzera italiana (USI))

  • Andrés Marco

    (Data Curators B.V)

  • Giordano Reginato

    (Università della Svizzera italiana (USI))

  • Simone G. Moro

    (Università della Svizzera italiana (USI))

  • Ananya Acharya

    (Università della Svizzera italiana (USI))

  • Megha Roy

    (Università della Svizzera italiana (USI))

  • Akshay Jayachandran

    (Università della Svizzera italiana (USI))

  • Elda Cannavo

    (Università della Svizzera italiana (USI))

  • Ilaria Ceppi

    (Università della Svizzera italiana (USI))

  • Petr Cejka

    (Università della Svizzera italiana (USI))

Abstract

Triplet repeat expansion underlies multiple pathologies, including Huntington’s disease, often arising in somatic non-dividing tissues such as the brain. Despite identification of genetic modifiers, mechanistic insights remain limited. Using purified human proteins, we show that MutLγ (MLH1-MLH3), stimulated by MutSβ (MSH2-MSH3), incises DNA opposite an extrahelical loop on the 5’ side. This activity, with a moderate sequence preference, generates DNA nicks enabling Polδ-mediated displacement synthesis with the loop as a template, leading to expansion. PCNA confines these MutLγ incisions near the loop. FAN1, instead, preferentially targets the looped strand. RFC-PCNA stimulate and direct FAN1 nuclease to the 3’ boundary of the loop while restricting its exonuclease activity. No pre-existing nick is required. Following FAN1-RFC-PCNA action, Polδ removes the loop and resynthesizes DNA, causing contraction. FAN1 also directly inhibits MutLγ, preventing its activation by MutSβ. Our study illuminates both repeat expansion and contraction mechanisms and reveals the protective function of FAN1.

Suggested Citation

  • Issam Senoussi & Valentina Mengoli & Arianna Cerana & Andrea Rinaldi & Andrés Marco & Giordano Reginato & Simone G. Moro & Ananya Acharya & Megha Roy & Akshay Jayachandran & Elda Cannavo & Ilaria Cepp, 2025. "Mechanism of trinucleotide repeat expansion by MutSβ-MutLγ and contraction by FAN1," Nature Communications, Nature, vol. 16(1), pages 1-16, December.
    • Handle: RePEc:nat:natcom:v:16:y:2025:i:1:d:10.1038_s41467-025-64485-w
    DOI: 10.1038/s41467-025-64485-w
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    References listed on IDEAS

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    1. Ilaria Ceppi & Maria Rosaria Dello Stritto & Martin Mütze & Stefan Braunshier & Valentina Mengoli & Giordano Reginato & Hồ Mỹ Phúc Võ & Sonia Jimeno & Ananya Acharya & Megha Roy & Aurore Sanchez & Swa, 2024. "Mechanism of BRCA1–BARD1 function in DNA end resection and DNA protection," Nature, Nature, vol. 634(8033), pages 492-500, October.
    2. Elda Cannavo & Aurore Sanchez & Roopesh Anand & Lepakshi Ranjha & Jannik Hugener & Céline Adam & Ananya Acharya & Nicolas Weyland & Xavier Aran-Guiu & Jean-Baptiste Charbonnier & Eva R. Hoffmann & Val, 2020. "Regulation of the MLH1–MLH3 endonuclease in meiosis," Nature, Nature, vol. 586(7830), pages 618-622, October.
    3. Giordano Reginato & Maria Rosaria Dello Stritto & Yanbo Wang & Jingzhou Hao & Raphael Pavani & Michael Schmitz & Swagata Halder & Vincent Morin & Elda Cannavo & Ilaria Ceppi & Stefan Braunshier & Anan, 2024. "HLTF disrupts Cas9-DNA post-cleavage complexes to allow DNA break processing," Nature Communications, Nature, vol. 15(1), pages 1-18, December.
    4. Dhananjaya S. Kulkarni & Shannon N. Owens & Masayoshi Honda & Masaru Ito & Ye Yang & Mary W. Corrigan & Lan Chen & Aric L. Quan & Neil Hunter, 2020. "PCNA activates the MutLγ endonuclease to promote meiotic crossing over," Nature, Nature, vol. 586(7830), pages 623-627, October.
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