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Nature genetics
Published

Micronuclear ecDNA constrains tumor cell fitness and is associated with favorable patient survival

Authors

Lotte Brückner, Robin Xu, Jun Tang, Aditi Gnanasekar, Alexander Herrmann, Ivy Tsz-Lo Wong, Shu Zhang, Fengyu Tu, Madison Pilon, Alexander Kukalev, Katharina Pardon, Olga Sidorova, Joshua Atta, Qinghao Yu, Giulia Montuori, Davide Pradella, Mila Ilić, Kentaro Suina, Marco Novais-Cruz, Sarah Kaltenbach, Denise Treue, Mădălina Giurgiu-Kraljič, Sergej Herzog, Ann-Sophie Hollinger, Nadine Wittstruck, Martina Fernandez, Nicole Wolozyn, Finnja Becker, Varvara-Rigina Louma, Xiaowei Yan, Rachel Schmargon, Jan R Dörr, David Gamlin, Annika Lehmann, Dennis Gürgen, Matthias Richter, Frank Dubois, Fabrizio Simeoni, Betheney R Pennycook, Alastair Hamilton, Ralph K Lindemann, Courtney Dawes, Gabriel Balmus, Barbara Hero, Matthias Fischer, Vineet Bafna, Roel Verhaak, Geoffrey Wahl, Yang Liu, Richard P Koche, Stamatis Papathanasiou, René Medema, Bastiaan Spanjaard, Andrea Ventura, Ana Pombo, Weini Huang, Monika Scheer, Benjamin Werner, Howard Y Chang, Paul S Mischel, Anton G Henssen

Abstract

Nat Genet. 2026 Oct 12. doi: 10.1038/s41588-026-02782-w. Online ahead of print.

ABSTRACT

Extrachromosomal DNA (ecDNA) contributes to cancer genome instability by enabling high-copy oncogene amplification and genetic intratumoral heterogeneity. Micronuclei (MNs) are common in chromosomally unstable cancers, yet their role in ecDNA-driven tumors remains unclear. Here we investigate how ecDNA damage, mitotic segregation and MN formation are linked. We find that ecDNAs are a major source of MNs following their damage, particularly under replication stress. Replication stress promotes mitotic ecDNA clustering, asymmetric inheritance, mis-segregation into MNs and reduced transcriptional output. Single-MN sequencing reveals that multiple distinct ecDNA species coalesce within individual MNs. Cells inheriting ecDNA+ MNs display impaired proliferative capacity and are more likely to undergo cell death. In patients with MYCN-amplified neuroblastoma, higher frequencies of ecDNA+ MNs at diagnosis are associated with improved overall survival. Together, these findings identify ecDNA mis-segregation as a mechanism that limits tumor fitness, highlighting mitotic ecDNA retention as a potential therapeutic vulnerability.

PMID:42864499 | DOI:10.1038/s41588-026-02782-w

UK DRI Authors

Prof Gabriel Balmus

Group Leader

Identifying genetic and environmental factors involved in DNA damage, neurodegeneration and ageing in neurons

Prof Gabriel Balmus