Germline Chromothripsis Driven by L1-Mediated Retrotransposition and Alu/Alu Homologous Recombination

Lusine Nazaryan-Petersen, Birgitte Bertelsen, Mads Bak, Lars Jønson, Niels Tommerup, Dustin C. Hancks, Zeynep Tümer

Research output: Contribution to journalArticle

30 Scopus citations

Abstract

Chromothripsis (CTH) is a phenomenon where multiple localized double-stranded DNA breaks result in complex genomic rearrangements. Although the DNA-repair mechanisms involved in CTH have been described, the mechanisms driving the localized "shattering" process remain unclear. High-throughput sequence analysis of a familial germline CTH revealed an inserted SVAE retrotransposon associated with a 110-kb deletion displaying hallmarks of L1-mediated retrotransposition. Our analysis suggests that the SVAE insertion did not occur prior to or after, but concurrent with the CTH event. We also observed L1-endonuclease potential target sites in other breakpoints. In addition, we found four Alu elements flanking the 110-kb deletion and associated with an inversion. We suggest that chromatin looping mediated by homologous Alu elements may have brought distal DNA regions into close proximity facilitating DNA cleavage by catalytically active L1-endonuclease. Our data provide the first evidence that active and inactive human retrotransposons can serve as endogenous mutagens driving CTH in the germline.

Original languageEnglish (US)
Pages (from-to)385-395
Number of pages11
JournalHuman Mutation
Volume37
Issue number4
DOIs
StatePublished - Apr 1 2016

Keywords

  • Alu
  • Chromothripsis
  • L1
  • LINE-1
  • NAHR
  • Nonallelic homologous recombination
  • SINE-VNTR-Alu
  • SVA

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)

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    Nazaryan-Petersen, L., Bertelsen, B., Bak, M., Jønson, L., Tommerup, N., Hancks, D. C., & Tümer, Z. (2016). Germline Chromothripsis Driven by L1-Mediated Retrotransposition and Alu/Alu Homologous Recombination. Human Mutation, 37(4), 385-395. https://doi.org/10.1002/humu.22953