Evidence map›Paper›PMID 39588753›Full record

ArticleNucleic acids research2024

Bacterial WYL domain transcriptional repressors sense single-stranded DNA to control gene expression.

Chelsea L Blankenchip, Kevin D Corbett

Abstract read
In one paragraph

Article in Nucleic acids research, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing 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

7 citing papers in PubMed.

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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

2 authors.

Chelsea L BlankenchipBiomedical Sciences Graduate Program, University of California, San Diego, 9500 Gilman Dr. La Jolla, CA 92093, USA.
Kevin D CorbettDepartment of Cellular and Molecular Medicine, University of California, San Diego, 9500 Gilman Dr. La Jolla, CA 92093, USA.ORCID 0000-0001-5854-2388

Funding

A Synchrotron Radiation Structural Biology ResourcesP30GM133894 · NIGMS · STANFORD UNIVERSITY · PI Thomas Michael Weiss · 2020 to 2026
$43.3M
Molecular Biophysics Training Grant at UC San DiegoT32GM139795 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Galia Debelouchina, ELIZABETH A. KOMIVES · 2021 to 2026
$3.0M
Molecular mechanisms of nucleic acid recognition and maintenance in meiosis and innate immunityR35GM144121 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Kevin Daniel Corbett · 2022 to 2026
$2.7M
Molecular mechanisms of bacterial immune signaling through DNA damageF31GM150210 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI BLANKENCHIP, CHELSEA LEE · 2023 to 2024
$65k
NIGMS NIH HHS F31 GM150210NIGMS NIH HHS P30 GM133894NIGMS NIH HHS R35 GM144121NIGMS NIH HHS T32 GM139795
6 · The paper itself

Abstract

Bacteria encode a wide array of immune systems to protect themselves against ubiquitous bacteriophages and foreign DNA elements. While these systems' molecular mechanisms are becoming increasingly well known, their regulation remains poorly understood. Here, we show that an immune system-associated transcriptional repressor of the wHTH-WYL-WCX family, CapW, directly binds single-stranded DNA to sense DNA damage and activate expression of its associated immune system. We show that CapW mediates increased expression of a reporter gene in response to DNA damage in a host cell. CapW directly binds single-stranded DNA by-products of DNA repair through its WYL domain, causing a conformational change that releases the protein from double-stranded DNA. In an Escherichia coli CBASS system with an integrated capW gene, we find that CapW-mediated transcriptional activation is important for this system's ability to prevent induction of a λ prophage. Overall, our data reveal the molecular mechanisms of WYL-domain transcriptional repressors, and provide an example of how bacteria can balance the protective benefits of carrying anti-phage immune systems against the inherent risk of these systems' aberrant activation.

Indexed as

DNA, Single-StrandedEscherichia coliGene Expression Regulation, BacterialRepressor ProteinsBacterial ProteinsBacteriophage lambdaDNA DamageEscherichia coli ProteinsProtein BindingProtein DomainsTranscriptional ActivationBacterial ProteinsDNA, Single-StrandedEscherichia coli ProteinsRepressor Proteins

Identifiers

PMID39588753
PMCPMC11662680

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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.