ArticleNucleic acids research2023
Widespread CRISPR-derived RNA regulatory elements in CRISPR-Cas systems.
Article in Nucleic acids research, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 25 citations in OpenAlex.
- Article
- MtvS1 and MtvS2 Interact with RNA polymerase to regulate the Francisella type V-A CRISPR-Cas system.Nature communications · 2026Article
- Computational tool choice impacts CRISPR spacer-protospacer detection.Bioinformatics (Oxford, England) · 2026Article
- Molecular engineering of CRISPR/Cas12a: from activity enhancement to exponential signal amplification.Chemical science · 2026Review
- Acquisition of Spacers from Foreign Prokaryotic Genomes by CRISPR-Cas Systems in Natural Environments.Genome biology and evolution · 2025Article
- Anti-restriction functions of injected phage proteins revealed by peeling back layers of bacterial immunity.Nature communications · 2025Article
- CRISPR-repressed toxin-antitoxin provides herd immunity against anti-CRISPR elements.Nature chemical biology · 2025Article
- Advancements in CRISPR-Based Therapies for Genetic Modulation in Neurodegenerative Disorders.Current gene therapy · 2025Review
- CRISPR-epigenetic crosstalk: From bidirectional regulation to therapeutic potential.Computational and structural biotechnology journal · 2025Review
- Long range segmentation of prokaryotic genomes by gene age and functionality.bioRxiv : the preprint server for biology · 2024Article
- Bacterial defense systems exhibit synergistic anti-phage activity.Cell host & microbe · 2024Article
- Inhibitors of bacterial immune systems: discovery, mechanisms and applications.Nature reviews. Genetics · 2024Review
- A bioinformatic approach to identify confirmed and probable CRISPR-Cas systems in theFrontiers in microbiology · 2024Article
- New faces of prokaryotic mobile genetic elements: guide RNAs link transposition with host defense mechanisms.Current opinion in systems biology · 2023Article
- Uncovering the functional diversity of rare CRISPR-Cas systems with deep terascale clustering.Science (New York, N.Y.) · 2023Article
- Viruses use RNA decoys to thwart CRISPR defences.Nature · 2023Article
- Article
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
Abstract
CRISPR-cas loci typically contain CRISPR arrays with unique spacers separating direct repeats. Spacers along with portions of adjacent repeats are transcribed and processed into CRISPR(cr) RNAs that target complementary sequences (protospacers) in mobile genetic elements, resulting in cleavage of the target DNA or RNA. Additional, standalone repeats in some CRISPR-cas loci produce distinct cr-like RNAs implicated in regulatory or other functions. We developed a computational pipeline to systematically predict crRNA-like elements by scanning for standalone repeat sequences that are conserved in closely related CRISPR-cas loci. Numerous crRNA-like elements were detected in diverse CRISPR-Cas systems, mostly, of type I, but also subtype V-A. Standalone repeats often form mini-arrays containing two repeat-like sequence separated by a spacer that is partially complementary to promoter regions of cas genes, in particular cas8, or cargo genes located within CRISPR-Cas loci, such as toxins-antitoxins. We show experimentally that a mini-array from a type I-F1 CRISPR-Cas system functions as a regulatory guide. We also identified mini-arrays in bacteriophages that could abrogate CRISPR immunity by inhibiting effector expression. Thus, recruitment of CRISPR effectors for regulatory functions via spacers with partial complementarity to the target is a common feature of diverse CRISPR-Cas systems.
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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.