Evidence map›Paper›PMID 41298417›Full record

ArticleNature communications2025

Torsion is a dynamic regulator of DNA replication stalling and reactivation.

Xiaomeng Jia, Xiang Gao, Shuming Zhang, James T Inman, Yifeng Hong, Anupam Singh, Fahad Rashid, James M Berger, Smita S Patel, Michelle D Wang

Abstract read
In one paragraph

Article in Nature communications, 2025. 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
–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

10 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. Article
  5. Article
  6. Article
  7. Review
  8. Article
  9. Article
  10. Geometry of Braided DNA Dictates Supercoiling Partition.bioRxiv : the preprint server for biology · 2024
    Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

10 authors.

Xiaomeng JiaHoward Hughes Medical Institute, Cornell University, Ithaca, NY, USA.ORCID http://orcid.org/0000-0002-1754-7198
Xiang GaoHoward Hughes Medical Institute, Cornell University, Ithaca, NY, USA.
Shuming ZhangHoward Hughes Medical Institute, Cornell University, Ithaca, NY, USA.
James T InmanHoward Hughes Medical Institute, Cornell University, Ithaca, NY, USA.
Yifeng HongDepartment of Electrical and Computer Engineering, Cornell University, Ithaca, NY, USA.ORCID http://orcid.org/0000-0002-4444-4848
Anupam SinghDepartment of Biochemistry and Molecular Biology, Robert Wood Johnson Medical School, Rutgers University, Piscataway, NJ, USA.ORCID http://orcid.org/0000-0003-0092-5102
Fahad RashidDepartment of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD, USA.ORCID http://orcid.org/0000-0003-3898-3842
James M BergerDepartment of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, Baltimore, MD, USA.ORCID http://orcid.org/0000-0003-0666-1240
Smita S PatelDepartment of Biochemistry and Molecular Biology, Robert Wood Johnson Medical School, Rutgers University, Piscataway, NJ, USA.
Michelle D WangHoward Hughes Medical Institute, Cornell University, Ithaca, NY, USA. mwang@physics.cornell.edu.ORCID http://orcid.org/0000-0001-9137-3790

Funding

Mechanistic studies of nucleic acid enzymes involved in DNA replication, transcription, and innate immunity.R35GM118086 · NIGMS · RUTGERS BIOMEDICAL AND HEALTH SCIENCES · PI SMITA S PATEL · 2016 to 2026
$8.9M
Mechanistic Studies of Replication Initiation in ProkaryotesR37GM071747 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI James M. Berger · 2017 to 2026
$4.4M
Fundamental Biological Processes Under TorsionR01GM136894 · NIGMS · CORNELL UNIVERSITY · PI WANG, MICHELLE D. · 2020 to 2023
$1.2M
Howard Hughes Medical Institute (HHMI) NANIGMS NIH HHS R01 GM136894NIGMS NIH HHS R35 GM118086NIGMS NIH HHS R37 GM071747U.S. Department of Health & Human Services | National Institutes of Health (NIH) R01GM136894U.S. Department of Health & Human Services | National Institutes of Health (NIH) R35GM118086U.S. Department of Health & Human Services | National Institutes of Health (NIH) R37GM071747
6 · The paper itself

Abstract

DNA's helical structure necessitates replisome rotation relative to DNA during replication, creating inevitable topological challenges. How replication generates and overcomes torsional stress remains unclear. Here, we developed a high-resolution, label-free, real-time assay to track DNA rotation by T7 replisome and its slowing under torsional stress. While helicase or DNA polymerase (DNAP) alone is a weak rotary motor, together they form the most powerful DNA rotary motor yet studied, generating ~22 pN·nm torque before stalling, twice that of E. coli RNA polymerase. Upon stalling, helicase-DNAP interactions stabilize the fork; without them, regression can extend hundreds of base pairs. Prolonged stalling inactivates the replisome, but excess DNAP, aided by interactions with helicase, promotes restart. Gyrase supports steady replication and enables timely restart of stalled forks. These findings demonstrate that helicase-DNAP synergy is essential for maintaining fork integrity under torsion, and that torsion is a key regulator of replication stalling and reactivation.

Indexed as

DNA ReplicationBacteriophage T7DNADNA, BacterialDNA-Directed DNA PolymeraseDNA HelicasesEscherichia coliEscherichia coli ProteinsNucleic Acid ConformationRotationTorqueDNADNA, BacterialDNA-Directed DNA PolymeraseDNA HelicasesEscherichia coli Proteins

Identifiers

PMID41298417
PMCPMC12658067

What OpenQuestion holds

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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.