Evidence map›Paper›PMID 39024377›Full record

ArticleScience (New York, N.Y.)2024

Structure-guided discovery of ancestral CRISPR-Cas13 ribonucleases.

Peter H Yoon, Zeyuan Zhang, Kenneth J Loi, Benjamin A Adler, Arushi Lahiri, Kamakshi Vohra, Honglue Shi, Daniel Bellieny Rabelo, Marena Trinidad, Ron S Boger and 2 more

Abstract read
In one paragraph

Article in Science (New York, N.Y.), 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.

0numbers the graph read from it
0cells of the map it votes in
29citing papers in PubMed
–field-weighted citation impact
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

29 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. Article
  5. Article
  6. Article
  7. Review
  8. A Noncontiguous Code for RNA-Guided DNA Recognition Preceded CRISPR.bioRxiv : the preprint server for biology · 2026
    Article
  9. Review
  10. Article
  11. Article
  12. Review
  13. Article
  14. BEST: Basic Embedding Search Tool Enhancing Discovery of Novel Enzyme.Interdisciplinary sciences, computational life sciences · 2026
    Article
  15. Review
  16. Structural visualization of the molecular evolution of CRISPR-Cas9.Nature structural & molecular biology · 2026
    Article
  17. Review
  18. Structure and evolution-guided design of minimal RNA-guided nucleases.bioRxiv : the preprint server for biology · 2025
    Article
  19. Review
  20. Article
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

12 authors.

Peter H YoonDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.ORCID 0000-0002-9156-1393
Zeyuan ZhangInnovative Genomics Institute, University of California, Berkeley, Berkeley, CA, USA.ORCID 0009-0001-2619-6502
Kenneth J LoiDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.ORCID 0009-0009-5508-6511
Benjamin A AdlerInnovative Genomics Institute, University of California, Berkeley, Berkeley, CA, USA.ORCID 0000-0002-7488-3040
Arushi LahiriDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.ORCID 0000-0001-6834-4692
Kamakshi VohraInnovative Genomics Institute, University of California, Berkeley, Berkeley, CA, USA.
Honglue ShiInnovative Genomics Institute, University of California, Berkeley, Berkeley, CA, USA.ORCID 0000-0003-3847-1652
Daniel Bellieny RabeloInnovative Genomics Institute, University of California, Berkeley, Berkeley, CA, USA.ORCID 0000-0003-2544-7899
Marena TrinidadInnovative Genomics Institute, University of California, Berkeley, Berkeley, CA, USA.
Ron S BogerInnovative Genomics Institute, University of California, Berkeley, Berkeley, CA, USA.
Muntathar J Al-ShimaryDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.ORCID 0000-0002-7021-2565
Jennifer A DoudnaDepartment of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA, USA.ORCID 0000-0001-9161-999X

Funding

Howard Hughes Medical Institute
6 · The paper itself

Abstract

The RNA-guided ribonuclease CRISPR-Cas13 enables adaptive immunity in bacteria and programmable RNA manipulation in heterologous systems. Cas13s share limited sequence similarity, hindering discovery of related or ancestral systems. To address this, we developed an automated structural-search pipeline to identify an ancestral clade of Cas13 (Cas13an) and further trace Cas13 origins to defense-associated ribonucleases. Despite being one-third the size of other Cas13s, Cas13an mediates robust programmable RNA depletion and defense against diverse bacteriophages. However, unlike its larger counterparts, Cas13an uses a single active site for both CRISPR RNA processing and RNA-guided cleavage, revealing that the ancestral nuclease domain has two modes of activity. Discovery of Cas13an deepens our understanding of CRISPR-Cas evolution and expands opportunities for precision RNA editing, showcasing the promise of structure-guided genome mining.

Indexed as

CRISPR-Associated ProteinsCRISPR-Cas SystemsEvolution, MolecularRibonucleasesRNA EditingRNA, Guide, CRISPR-Cas SystemsBacteriophagesCatalytic DomainPhylogenyCRISPR-Associated ProteinsRibonucleasesRNA, Guide, CRISPR-Cas Systems

Identifiers

PMID39024377
PMCPMC12165695

What OpenQuestion holds

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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.