ArticleProceedings of the National Academy of Sciences of the United States of America2009
Single molecule detection of direct, homologous, DNA/DNA pairing.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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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.
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Who cites it
43 citing papers in PubMed.
- Imaging and mechanism of DNA-DNA recognition mediated by divalent ions.Nucleic acids research · 2026Article
- Direct evidence and quantification of homologous recognition between DNA duplexes.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Analysis of long-range contacts across cell types outlines a core sequence determinant of 3D genome organization.NAR genomics and bioinformatics · 2025Article
- The emerging sequence grammar of 3D genome organisation.Human genetics · 2025Review
- Homologous pairing in short double-stranded DNA-grafted colloidal microspheres.Biophysical journal · 2022Article
- The Effects of Flexibility on dsDNA-dsDNA Interactions.Life (Basel, Switzerland) · 2022Article
- Nucleosome-induced homology recognition in chromatin.Journal of the Royal Society, Interface · 2021Article
- New Aspects of Magnesium Function: A Key Regulator in Nucleosome Self-Assembly, Chromatin Folding and Phase Separation.International journal of molecular sciences · 2019Review
- Complex between a Multicrossover DNA Nanostructure, PX-DNA, and T7 Endonuclease I.Biochemistry · 2019Article
- Sequence-dependent DNA condensation as a driving force of DNA phase separation.Nucleic acids research · 2018Article
- A Horizontal Magnetic Tweezers and Its Use for Studying Single DNA Molecules.Micromachines · 2018Article
- Ionic effects on the temperature-force phase diagram of DNA.Journal of biological physics · 2017Article
- Recombination-independent recognition of DNA homology for repeat-induced point mutation.Current genetics · 2017Review
- Article
- Mechanisms of fast and stringent search in homologous pairing of double-stranded DNA.PLoS computational biology · 2017Article
- Single molecule identification of homology-dependent interactions between long ssRNA and dsDNA.Nucleic acids research · 2017Article
- A repetitive DNA-directed program of chromosome packaging during mitosis.Journal of genetics and genomics = Yi chuan xue bao · 2016Article
- Evidence of protein-free homology recognition in magnetic bead force-extension experiments.Proceedings. Mathematical, physical, and engineering sciences · 2016Article
- Recombination-Independent Recognition of DNA Homology for Repeat-Induced Point Mutation (RIP) Is Modulated by the Underlying Nucleotide Sequence.PLoS genetics · 2016Article
- Direct evidence for sequence-dependent attraction between double-stranded DNA controlled by methylation.Nature communications · 2016Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
Using a parallel single molecule magnetic tweezers assay we demonstrate homologous pairing of two double-stranded (ds) DNA molecules in the absence of proteins, divalent metal ions, crowding agents, or free DNA ends. Pairing is accurate and rapid under physiological conditions of temperature and monovalent salt, even at DNA molecule concentrations orders of magnitude below those found in vivo, and in the presence of a large excess of nonspecific competitor DNA. Crowding agents further increase the reaction rate. Pairing is readily detected between regions of homology of 5 kb or more. Detected pairs are stable against thermal forces and shear forces up to 10 pN. These results strongly suggest that direct recognition of homology between chemically intact B-DNA molecules should be possible in vivo. The robustness of the observed signal raises the possibility that pairing might even be the "default" option, limited to desired situations by specific features. Protein-independent homologous pairing of intact dsDNA has been predicted theoretically, but further studies are needed to determine whether existing theories fit sequence length, temperature, and salt dependencies described here.
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Registered trials
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.