Evidence map›Paper›PMID 31857715›Full record

ReviewNature reviews. Microbiology2020

Evolutionary classification of CRISPR-Cas systems: a burst of class 2 and derived variants.

Kira S Makarova, Yuri I Wolf, Jaime Iranzo, Sergey A Shmakov, Omer S Alkhnbashi, Stan J J Brouns, Emmanuelle Charpentier, David Cheng, Daniel H Haft, Philippe Horvath and 16 more

Open access · greenAbstract readReview
In one paragraph

Review in Nature reviews. Microbiology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1,263 papers.

0numbers the graph read from it
0cells of the map it votes in
1,263citing papers in PubMed
84.2field-weighted citation impact, top 1% 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

1,263 citing papers in PubMed, 2,397 citations in OpenAlex.

  1. CRISPR/Cas Systems: Biological Basis and Genome Editing Applications.Methods in molecular biology (Clifton, N.J.) · 2027
    Review
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  6. How bacterial immune systems sense phage infection.Nature reviews. Microbiology · 2026
    Review
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  18. Article
  19. Draft genome sequence ofMicrobiology resource announcements · 2026
    Article
  20. Review

1,203 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

26 authors at 16 institutions in 9 countries.

Kira S MakarovaNational Center for Biotechnology Information, National Library of Medicine, Bethesda, MD, USA.ORCID http://orcid.org/0000-0002-8174-2844
Yuri I WolfNational Center for Biotechnology Information, National Library of Medicine, Bethesda, MD, USA.ORCID http://orcid.org/0000-0002-0247-8708
Jaime IranzoNational Center for Biotechnology Information, National Library of Medicine, Bethesda, MD, USA.
Sergey A ShmakovNational Center for Biotechnology Information, National Library of Medicine, Bethesda, MD, USA.
Omer S AlkhnbashiBioinformatics group, Department of Computer Science, University of Freiberg, Freiberg, Germany.
Stan J J BrounsKavli Institute of Nanoscience, Department of Bionanoscience, Delft University of Technology, Delft, The Netherlands.
Emmanuelle CharpentierMax Planck Unit for the Science of Pathogens, Humboldt University, Berlin, Germany.
David ChengArbor Biotechnologies, Cambridge, MA, USA.
Daniel H HaftNational Center for Biotechnology Information, National Library of Medicine, Bethesda, MD, USA.
Philippe HorvathDuPont Nutrition and Health, Dangé-Saint-Romain, France.
Sylvain MoineauDépartement de biochimie, de microbiologie et de bio-informatique, Faculté des sciences et de génie, Groupe de recherche en écologie buccale, Félix d'Hérelle Reference Center for Bacterial Viruses, Faculté de médecine dentaire, Université Laval, Québec City, Québec, Canada.ORCID http://orcid.org/0000-0002-2832-5101
Francisco J M MojicaDepartamento de Fisiología, Genética y Microbiología, Universidad de Alicante, Alicante, Spain.ORCID http://orcid.org/0000-0002-6660-4996
David ScottArbor Biotechnologies, Cambridge, MA, USA.
Shiraz A ShahCOPSAC, Copenhagen Prospective Studies on Asthma in Childhood, Herlev and Gentofte Hospital, University of Copenhagen, Gentofte, Denmark.
Virginijus SiksnysInstitute of Biotechnology, Life Sciences Center, Vilnius University, Vilnius, Lithuania.
Michael P TernsBiochemistry and Molecular Biology, Genetics and Microbiology, University of Georgia, Athens, GA, USA.
Česlovas VenclovasInstitute of Biotechnology, Life Sciences Center, Vilnius University, Vilnius, Lithuania.ORCID http://orcid.org/0000-0002-4215-0213
Malcolm F WhiteBiomedical Sciences Research Complex, University of St. Andrews, St. Andrews, UK.ORCID http://orcid.org/0000-0003-1543-9342
Alexander F YakuninDepartment of Chemical Engineering and Applied Chemistry, University of Toronto, Toronto, Canada.ORCID http://orcid.org/0000-0003-0813-6490
Winston YanArbor Biotechnologies, Cambridge, MA, USA.
Feng ZhangBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Roger A GarrettArchaea Centre, Department of Biology, Copenhagen University, Copenhagen, Denmark.
Rolf BackofenBioinformatics group, Department of Computer Science, University of Freiberg, Freiberg, Germany.
John van der OostLaboratory of Microbiology, Wageningen University, Wageningen, The Netherlands.ORCID http://orcid.org/0000-0001-5024-1871
Rodolphe BarrangouDepartment of Food, Bioprocessing, and Nutrition Sciences, North Carolina State University, Raleigh, NC, USA.ORCID http://orcid.org/0000-0002-0648-3504
Eugene V KooninNational Center for Biotechnology Information, National Library of Medicine, Bethesda, MD, USA. koonin@ncbi.nlm.nih.gov.ORCID http://orcid.org/0000-0003-3943-8299
National Center for Biotechnology Information · USUniversity of Copenhagen · DKVilnius University · LTBangor University · GBBroad Institute · USDelft University of Technology · NLDuPont (France) · FRMax Planck Unit for the Science of Pathogens · DENorth Carolina State University · USTU Bergakademie Freiberg · DEUniversité Laval · CAUniversity of Alicante · ESUniversity of Freiburg · DEUniversity of Georgia · USUniversity of St Andrews · GBWageningen University & Research · NL

Funding

Comparative Analysis Of Completely Sequenced GenomesZIALM000073 · NLM · NATIONAL LIBRARY OF MEDICINE · PI KOONIN, EUGENE V · 2009 to 2025
$43.1M
Finding Protein Sequence Motifs--Methods And ApplicationsZIALM000061 · NLM · NATIONAL LIBRARY OF MEDICINE · PI KOONIN, EUGENE V · 2009 to 2025
$10.6M
CRISPR Capture, Destroy, and Counter-Attack MechanismsR35GM118160 · NIGMS · UNIVERSITY OF GEORGIA · PI TERNS, MICHAEL P · 2016 to 2025
$5.8M
NIGMS NIH HHS R35 GM118160
6 · The paper itself

Abstract

The number and diversity of known CRISPR-Cas systems have substantially increased in recent years. Here, we provide an updated evolutionary classification of CRISPR-Cas systems and cas genes, with an emphasis on the major developments that have occurred since the publication of the latest classification, in 2015. The new classification includes 2 classes, 6 types and 33 subtypes, compared with 5 types and 16 subtypes in 2015. A key development is the ongoing discovery of multiple, novel class 2 CRISPR-Cas systems, which now include 3 types and 17 subtypes. A second major novelty is the discovery of numerous derived CRISPR-Cas variants, often associated with mobile genetic elements that lack the nucleases required for interference. Some of these variants are involved in RNA-guided transposition, whereas others are predicted to perform functions distinct from adaptive immunity that remain to be characterized experimentally. The third highlight is the discovery of numerous families of ancillary CRISPR-linked genes, often implicated in signal transduction. Together, these findings substantially clarify the functional diversity and evolutionary history of CRISPR-Cas.

Indexed as

Evolution, MolecularArchaeaBacteriaCRISPR-Cas SystemsGene Expression Regulation, ArchaealGene Expression Regulation, Bacterial

Identifiers

PMID31857715
PMCPMC8905525
OpenAlexW2995081665

What OpenQuestion holds

Textmetadata
LicenceTDM
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.