Evidence map›Paper›PMID 30993331›Full record

ArticleFEMS microbiology letters2019

Predicted highly derived class 1 CRISPR-Cas system in Haloarchaea containing diverged Cas5 and Cas7 homologs but no CRISPR array.

Kira S Makarova, Svetlana Karamycheva, Shiraz A Shah, Gisle Vestergaard, Roger A Garrett, Eugene V Koonin

Open access · hybridAbstract read
In one paragraph

Article in FEMS microbiology letters, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing papers in PubMed
0.9field-weighted citation impact, top 28% 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

10 citing papers in PubMed, 16 citations in OpenAlex.

  1. Article
  2. Article
  3. Review
  4. Article
  5. Review
  6. Functional Identification of theFrontiers in microbiology · 2021
    Article
  7. CRISPR Arrays Away fromThe CRISPR journal · 2020
    Article
  8. Article
  9. Review
  10. Review
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

6 authors at 3 institutions in 2 countries.

Kira S MakarovaNational Center for Biotechnology Information, National Library of Medicine, 8600 Rockville Pike, Bethesda, MD 20894, USA.
Svetlana KaramychevaNational Center for Biotechnology Information, National Library of Medicine, 8600 Rockville Pike, Bethesda, MD 20894, USA.
Shiraz A ShahDanish Archaea Centre, Department of Biology, University of Copenhagen, Danish Archaea Centre, Ole Maaloes Vej 5, Copenhagen , DK-2200 Denmark.
Gisle VestergaardSection for Bioinformatics, Department of Health Technology, Technical University of Denmark, Anker Engelunds Vej 1, 2800 Kgs. Lyngby, Denmark.
Roger A GarrettDanish Archaea Centre, Department of Biology, University of Copenhagen, Danish Archaea Centre, Ole Maaloes Vej 5, Copenhagen , DK-2200 Denmark.
Eugene V KooninNational Center for Biotechnology Information, National Library of Medicine, 8600 Rockville Pike, Bethesda, MD 20894, USA.
National Center for Biotechnology Information · USUniversity of Copenhagen · DKTechnical University of Denmark · DK

Funding

Finding Protein Sequence Motifs--Methods And ApplicationsZIALM000061 · NLM · NATIONAL LIBRARY OF MEDICINE · PI KOONIN, EUGENE V · 2009 to 2025
$10.6M
6 · The paper itself

Abstract

Screening of genomic and metagenomic databases for new variants of CRISPR-Cas systems increasingly results in the discovery of derived variants that do not seem to possess the interference capacity and are implicated in functions distinct from adaptive immunity. We describe an extremely derived putative class 1 CRISPR-Cas system that is present in many Halobacteria and consists of distant homologs of the Cas5 and Cas7 protein along with an uncharacterized conserved protein and various nucleases. We hypothesize that, although this system lacks typical CRISPR effectors or a CRISPR array, it functions as a RNA-dependent defense mechanism that, unlike other derived CRISPR-Cas, utilizes alternative nucleases to cleave invader genomes.

Indexed as

Genome, ArchaealArchaeal ProteinsClustered Regularly Interspaced Short Palindromic RepeatsCRISPR-Cas SystemsHalobacteriaceaePhylogenyArchaeal ProteinsCas7, Cas5CRISPR-Cas systemsdefense systemsHalobacterianuclease

Identifiers

PMID30993331
PMCPMC6702361
OpenAlexW2937058486

What OpenQuestion holds

Textmetadata
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.