Stimulation of homologous recombination through targeted cleavage by chimeric nucleases

M. Bibikova, D. Carroll, David Segal, J. K. Trautman, J. Smith, Y. G. Kim, S. Chandrasegaran

Research output: Contribution to journalArticle

364 Citations (Scopus)

Abstract

Chimeric nucleases that are hybrids between a nonspecific DNA cleavage domain and a zinc finger DNA recognition domain were tested for their ability to find and cleave their target sites in living cells. Both engineered DNA substrates and the nucleases were injected into Xenopus laevis oocyte nuclei, in which DNA cleavage and subsequent homologous recombination were observed. Specific cleavage required two inverted copies of the zinc finger recognition site in close proximity, reflecting the need for dimerization of the cleavage domain. Cleaved DNA molecules were activated for homologous recombination; in optimum conditions, essentially 100% of the substrate recombined, even though the DNA was assembled into chromatin. The original nuclease has an 18-amino-acid linker between the zinc finger and cleavage domains, and this enzyme cleaved in oocytes at paired sites separated by spacers in the range of 6 to 18 bp, with a rather sharp optimum at 8 bp. By shortening the linker, we found that the range of effective site separations could be narrowed significantly. With no intentional linker between the binding and cleavage domains, only binding sites exactly 6 bp apart supported efficient cleavage in oocytes. We also showed that two chimeric enzymes with different binding specificities could collaborate to stimulate recombination when their individual sites were appropriately placed. Because the recognition specificity of zinc fingers can be altered experimentally, this approach holds great promise for inducing targeted recombination in a variety of organisms.

Original languageEnglish (US)
Pages (from-to)289-297
Number of pages9
JournalMolecular and Cellular Biology
Volume21
Issue number1
DOIs
StatePublished - 2001
Externally publishedYes

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Homologous Recombination
Zinc Fingers
Oocytes
DNA Cleavage
Genetic Recombination
DNA
Deoxyribonucleases
Xenopus laevis
Dimerization
Enzymes
Chromatin
Binding Sites
Amino Acids

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics
  • Cell Biology

Cite this

Bibikova, M., Carroll, D., Segal, D., Trautman, J. K., Smith, J., Kim, Y. G., & Chandrasegaran, S. (2001). Stimulation of homologous recombination through targeted cleavage by chimeric nucleases. Molecular and Cellular Biology, 21(1), 289-297. https://doi.org/10.1128/MCB.21.1.289-297.2001

Stimulation of homologous recombination through targeted cleavage by chimeric nucleases. / Bibikova, M.; Carroll, D.; Segal, David; Trautman, J. K.; Smith, J.; Kim, Y. G.; Chandrasegaran, S.

In: Molecular and Cellular Biology, Vol. 21, No. 1, 2001, p. 289-297.

Research output: Contribution to journalArticle

Bibikova, M, Carroll, D, Segal, D, Trautman, JK, Smith, J, Kim, YG & Chandrasegaran, S 2001, 'Stimulation of homologous recombination through targeted cleavage by chimeric nucleases', Molecular and Cellular Biology, vol. 21, no. 1, pp. 289-297. https://doi.org/10.1128/MCB.21.1.289-297.2001
Bibikova, M. ; Carroll, D. ; Segal, David ; Trautman, J. K. ; Smith, J. ; Kim, Y. G. ; Chandrasegaran, S. / Stimulation of homologous recombination through targeted cleavage by chimeric nucleases. In: Molecular and Cellular Biology. 2001 ; Vol. 21, No. 1. pp. 289-297.
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