ReviewRNA biology2012
Cascade-mediated binding and bending of negatively supercoiled DNA.
Review in RNA biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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.
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.
Who cites it
26 citing papers in PubMed, 41 citations in OpenAlex.
- Structural insight into IscB's RNA-lid-based inactivation mechanism.Nature structural & molecular biology · 2026Article
- CRISPR-Cas Systems: A Functional Perspective and Innovations.International journal of molecular sciences · 2025Review
- Strategies and Methods for Improving the Efficiency of CRISPR/Cas9 Gene Editing in Plant Molecular Breeding.Plants (Basel, Switzerland) · 2023Review
- Digging into the lesser-known aspects of CRISPR biology.International microbiology : the official journal of the Spanish Society for Microbiology · 2021Review
- Cas3/I-C mediated target DNA recognition and cleavage during CRISPR interference are independent of the composition and architecture of Cascade surveillance complex.Nucleic acids research · 2020Article
- Harnessing type I CRISPR-Cas systems for genome engineering in human cells.Nature biotechnology · 2019Article
- The Discovery, Mechanisms, and Evolutionary Impact of Anti-CRISPRs.Annual review of virology · 2017Review
- Cas1 and the Csy complex are opposing regulators of Cas2/3 nuclease activity.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- The Impact of DNA Topology and Guide Length on Target Selection by a Cytosine-Specific Cas9.ACS synthetic biology · 2017Article
- CRISPR-Cas: biology, mechanisms and relevance.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2016Review
- Mechanism of CRISPR-RNA guided recognition of DNA targets in Escherichia coli.Nucleic acids research · 2015Article
- A Conserved Structural Chassis for Mounting Versatile CRISPR RNA-Guided Immune Responses.Molecular cell · 2015Review
- Three CRISPR-Cas immune effector complexes coexist in Pyrococcus furiosus.RNA (New York, N.Y.) · 2015Article
- DNA and RNA interference mechanisms by CRISPR-Cas surveillance complexes.FEMS microbiology reviews · 2015Review
- Progress and prospects of engineered sequence-specific DNA modulating technologies for the management of liver diseases.World journal of hepatology · 2015Review
- Crystal structure of Thermobifida fusca Cse1 reveals target DNA binding site.Protein science : a publication of the Protein Society · 2015Article
- Molecular insights into DNA interference by CRISPR-associated nuclease-helicase Cas3.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Unravelling the structural and mechanistic basis of CRISPR-Cas systems.Nature reviews. Microbiology · 2014Review
- Molecular mechanisms of CRISPR-mediated microbial immunity.Cellular and molecular life sciences : CMLS · 2014Review
- Staphylococcus epidermidis Csm1 is a 3'-5' exonuclease.Nucleic acids research · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 3 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Prokaryotes possess various defense mechanisms against invading DNA. Adaptive defense by CRISPR/Cas relies on incorporation of invader DNA sequences in the host genome. In Escherichia coli, processed transcripts of these incorporated sequences (crRNAs) guide Cascade-mediated invader DNA recognition. ( 1) (-) ( 4) Cascade is a multisubunit ribonucleoprotein complex, consisting of one crRNA and five proteins: Cse1, Cse2, Cas7, Cas5 and Cas6e. ( 1) (, ) ( 2) Cascade-mediated DNA recognition requires a conserved sequence adjacent to the target (protospacer adjacent motif, PAM) and a negatively supercoiled DNA topology. ( 3) (, ) ( 4) While Cse1 carries out PAM recognition, ( 5) the Cascade structure suggests that Cse2 may interact with target DNA in the PAM-distal end of the protospacer. ( 6) Using Electrophoretic Mobility Shift Assays, we here describe the function of the Cse1 and Cse2 subunits in the context of protospacer recognition on negatively supercoiled DNA. While Cse1 is required for nonspecific DNA binding, Cse2 appears to be important for specific binding, presumably by mediating stabilizing interactions with the displaced strand, the R-loop, or both. Furthermore, we performed Scanning Force Microscopy using linearized DNA molecules, which facilitates accurate and reliable measurements of Cascade-mediated bending. This analysis reveals that Cascade binding induces flexibility in the DNA target, most likely due to single stranded DNA regions flanking the R-loop.
Indexed as
Identifiers
What OpenQuestion holds
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.