Evidence map›Paper›PMID 42282849›Full record

ArticlebioRxiv : the preprint server for biology2026

Polynucleotide Phosphorylase Stops Replication Restart by Degrading the RNA within R-loops during Replication-Transcription Conflicts.

Oyku Sensoy, Juan Carvajal-Garcia, Shahin Boumi, Houra Merrikh

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

4 authors.

Oyku SensoyDepartment of Biochemistry, Vanderbilt University School of Medicine. Nashville, TN 37232, USA.
Juan Carvajal-GarciaDepartment of Biochemistry, Vanderbilt University School of Medicine. Nashville, TN 37232, USA.ORCID 0000-0001-7257-3674
Shahin BoumiDepartment of Biochemistry, Vanderbilt University School of Medicine. Nashville, TN 37232, USA.
Houra MerrikhDepartment of Biochemistry, Vanderbilt University School of Medicine. Nashville, TN 37232, USA.ORCID 0000-0001-9956-9640

Funding

The role of error-prone polymerases in mutagenesis and evolutionK99ES037493 · NIEHS · VANDERBILT UNIVERSITY · PI CARVAJAL GARCIA, JUAN · 2025 to 2025
$123k
NIEHS NIH HHS K99 ES037493
6 · The paper itself

Abstract

DNA replication and transcription machineries function simultaneously, on the same template, leading to conflicts between the two. During conflicts, the nascent mRNAs can hybridize to their template strands, generating RNA:DNA hybrids, which reside within nucleic acid structures known as R-loops. Accumulation of R-loops can lead to severe replication fork stalling, eventually leading to cell death. In bacteria, there are well-known replication restart mechanisms that should rescue these stalled replication forks, and yet, during conflicts, this process is inhibited. Additionally, in vitro work has shown that RNA:DNA hybrids are substrates for replication restart. Here, we discovered that the highly conserved exonuclease Polynucleotide Phosphorylase (PNPase in

Indexed as

Geneticsmutagenesispolynucleotide phosphorylasereplication restartreplication-transcription conflictsReplication-transcription conflictsR-loopsRNA:DNA hybridsRNA:DNA Hybrids

Identifiers

PMID42282849
PMCPMC13251995

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
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.