Evidence map›Paper›PMID 11113203›Full record

ArticleMolecular and cellular biology2001

Stimulation of homologous recombination through targeted cleavage by chimeric nucleases.

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

Open access · greenAbstract read
In one paragraph

Article in Molecular and cellular biology, 2001. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 270 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
270citing papers in PubMed, 1 pooled it
3.5field-weighted citation impact, top 7% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

270 citing papers in PubMed, 1 synthesis or guideline pooled it, 607 citations in OpenAlex.

  1. Pooled it
  2. Review
  3. Review
  4. Epigenome editing based treatment: Progresses and challenges.Molecular therapy : the journal of the American Society of Gene Therapy · 2026
    Review
  5. Engineering Mutation Clones in Mammalian Cells with CRISPR/Cas9.Methods in molecular biology (Clifton, N.J.) · 2026
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  7. Current trends in gene therapy to treat inherited disorders of the brain.Molecular therapy : the journal of the American Society of Gene Therapy · 2025
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  8. Review
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  10. Review
  11. Dissecting SNARE-Mediated Exocytosis in RBL-2H3 Mast Cells.Methods in molecular biology (Clifton, N.J.) · 2025
    Article
  12. Review
  13. Article
  14. Article
  15. Review
  16. CRISPR technologies for genome, epigenome and transcriptome editing.Nature reviews. Molecular cell biology · 2024
    Review
  17. Autologous gene therapy for hemoglobinopathies: From bench to patient's bedside.Molecular therapy : the journal of the American Society of Gene Therapy · 2024
    Review
  18. Article
  19. Article
  20. Article

210 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors at 2 institutions in 1 country.

M BibikovaDepartment of Biochemistry, University of Utah School of Medicine, Salt Lake City, Utah 84132, USA.
D Carroll
D J Segal
J K Trautman
J Smith
Y G Kim
S Chandrasegaran
University of Utah · USJohns Hopkins University · US

Funding

HYBRID ENDONUCLEASES FOR GENOMIC RESEARCH AND ANALYSISR01GM053923 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI CHANDRASEGARAN, SRINIVASAN · 1996 to 2003
$1.1M
Chimeric Nucleases for Gene Targeting in DrosophilaR01GM058504 · NIGMS · UNIVERSITY OF UTAH · PI CARROLL, DANA · 1999 to 2003
$919k
VERTEBRATE GENE TARGETING--A MODEL SYSTEMR01GM050739 · NIGMS · UNIVERSITY OF UTAH · PI CARROLL, DANA · 1994 to 1996
–
NIGMS NIH HHS GM50739NIGMS NIH HHS GM53923NIGMS NIH HHS GM58504NIGMS NIH HHS R01 GM053923NIGMS NIH HHS R01 GM058504
6 · The paper itself

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.

Indexed as

Zinc FingersAnimalsBinding SitesCatalysisDeoxyribonucleases, Type II Site-SpecificDNAGene TargetingMicroinjectionsModels, MolecularMutationOocytesProtein ConformationRecombinant Fusion ProteinsRecombination, GeneticSequence Homology, Nucleic AcidSubstrate SpecificityDeoxyribonucleases, Type II Site-SpecificDNAendodeoxyribonuclease FokIRecombinant Fusion Proteins

Identifiers

PMID11113203
PMCPMC88802
OpenAlexW2113446817

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.