Sequence conversion by single strand oligonucleotide donors via non-homologous end joining in mammalian cells

Jia Liu, Alokes Majumdar, Jilan Liu, Lawrence H. Thompson, Michael M. Seidman

Research output: Contribution to journalArticle

14 Citations (Scopus)

Abstract

Double strand breaks (DSBs) can be repaired by homology independent nonhomologous end joining (NHEJ) pathways involving proteins such as Ku70/80, DNAPKcs, Xrcc4/Ligase 4, and the Mre11/Rad50/Nbs1 (MRN) complex. DSBs can also be repaired by homology-dependent pathways (HDR), in which the MRNand CtIP nucleases produce single strand ends that engage homologous sequences either by strand invasion or strand annealing. The entry of ends into HDR pathways underlies protocols for genomic manipulation that combine site-specific DSBs with appropriate informational donors. Most strategies utilize long duplex donors that participate by strand invasion. Work in yeast indicates that single strand oligonucleotide (SSO) donors are also active, over considerable distance, via a single strand annealing pathway. We examined the activity of SSO donors in mammalian cells at DSBs induced either by a restriction nuclease or by a targeted interstrand cross-link. SSO donors were effective immediately adjacent to the break, but activity declined sharply beyond ∼100 nucleotides. Overexpression of the resection nuclease CtIP increased the frequency of SSO-mediated sequence modulation distal to the break site, but had no effect on the activity of an SSO donor adjacent to the break. Genetic and in vivo competition experiments showed that sequence conversion by SSOs in the immediate vicinity of the break was not by strand invasion or strand annealing pathways. Instead these donors competed for ends that would have otherwise entered NHEJ pathways.

Original languageEnglish (US)
Pages (from-to)23198-23207
Number of pages10
JournalJournal of Biological Chemistry
Volume285
Issue number30
DOIs
StatePublished - Jul 23 2010
Externally publishedYes

Fingerprint

Oligonucleotides
Joining
Cells
Annealing
Ligases
Sequence Homology
Yeast
Nucleotides
Yeasts
Modulation
Proteins
Experiments

ASJC Scopus subject areas

  • Biochemistry
  • Cell Biology
  • Molecular Biology

Cite this

Sequence conversion by single strand oligonucleotide donors via non-homologous end joining in mammalian cells. / Liu, Jia; Majumdar, Alokes; Liu, Jilan; Thompson, Lawrence H.; Seidman, Michael M.

In: Journal of Biological Chemistry, Vol. 285, No. 30, 23.07.2010, p. 23198-23207.

Research output: Contribution to journalArticle

Liu, Jia ; Majumdar, Alokes ; Liu, Jilan ; Thompson, Lawrence H. ; Seidman, Michael M. / Sequence conversion by single strand oligonucleotide donors via non-homologous end joining in mammalian cells. In: Journal of Biological Chemistry. 2010 ; Vol. 285, No. 30. pp. 23198-23207.
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