Evidence map›Paper›PMID 40504685›Full record

ArticleCell reports2025

Flagellar switch inverted repeats impact heterogeneity in flagellar gene expression and thus C. difficile RT027/MLST1 virulence.

Nguyen T Q Nhu, Huaiying Lin, Ying Pigli, Jonathan K Sia, Pola Kuhn, Hannah Ruppel, Evan S Snitkin, Vincent B Young, Mini Kamboj, Eric G Pamer and 3 more

Abstract read
In one paragraph

Article in Cell reports, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

  1. Review
  2. A programmed reset mechanism primesScience advances · 2026
    Article
  3. Clostridioides difficile pathogenesis and control.Nature reviews. Microbiology · 2026
    Review
  4. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

13 authors.

Nguyen T Q NhuDepartment of Medicine, University of Chicago, Chicago, IL 60637, USA; Duchossois Family Institute, University of Chicago, Chicago, IL 60637, USA.
Huaiying LinDuchossois Family Institute, University of Chicago, Chicago, IL 60637, USA.
Ying PigliDepartment of Biochemistry and Molecular Biology, University of Chicago, Chicago, IL 60637, USA.
Jonathan K SiaImmunology Program, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA.
Pola KuhnDepartment of Molecular Biology and Microbiology, Tufts University, Boston, MA 02111, USA.
Hannah RuppelDivision of Infectious Diseases, Department of Internal Medicine, University of Michigan, Ann Arbor, MI 48109, USA.
Evan S SnitkinDivision of Infectious Diseases, Department of Internal Medicine, University of Michigan, Ann Arbor, MI 48109, USA.
Vincent B YoungDivision of Infectious Diseases, Department of Internal Medicine, University of Michigan, Ann Arbor, MI 48109, USA; Department of Microbiology & Immunology, University of Michigan, Ann Arbor, MI 48109, USA.
Mini KambojInfection Control, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA.
Eric G PamerDepartment of Medicine, University of Chicago, Chicago, IL 60637, USA; Duchossois Family Institute, University of Chicago, Chicago, IL 60637, USA.
Phoebe A RiceDepartment of Biochemistry and Molecular Biology, University of Chicago, Chicago, IL 60637, USA.
Aimee ShenDepartment of Molecular Biology and Microbiology, Tufts University, Boston, MA 02111, USA.
Qiwen DongDepartment of Medicine, University of Chicago, Chicago, IL 60637, USA; Duchossois Family Institute, University of Chicago, Chicago, IL 60637, USA; Department of Molecular Biology and Microbiology, Tufts University, Boston, MA 02111, USA. Electronic address: qiwendong0721@gmail.com.

Funding

X-RAY CRYSTALLOGRAPHYP30CA008748 · NCI · SLOAN-KETTERING INSTITUTE FOR CANCER RES · PI SELWYN M VICKERS · 1985 to 2026
$347.4M
Innate Immune Defense against Clostridium Difficile InfectionR01AI095706 · NIAID · UNIVERSITY OF CHICAGO · PI PAMER, ERIC G. · 2012 to 2020
$3.4M
Machinery of the Microbial MobilomeR35GM149586 · NIGMS · UNIVERSITY OF CHICAGO · PI PHOEBE A RICE · 2023 to 2026
$1.8M
Analyzing the Biogeography of Virulence and Transmission Gene Expression during Clostridioides difficile infectionR21AI168849 · NIAID · TUFTS UNIVERSITY BOSTON · PI KUMAMOTO, CAROL A., SHEN, AIMEE · 2022 to 2023
$446k
NCI NIH HHS P30 CA008748NIAID NIH HHS R01 AI095706NIAID NIH HHS R21 AI168849NIGMS NIH HHS R35 GM149586
6 · The paper itself

Abstract

Clostridioides difficile (C. difficile) RT027 strains cause infections that vary in severity from asymptomatic to lethal, but the molecular basis for this variability is poorly understood. Through comparative analyses of RT027 clinical isolates, we determine that isolates that exhibit greater heterogeneity in their flagellar gene expression exhibit greater virulence in vivo. C. difficile flagellar genes are phase-variably expressed due to the site-specific inversion of the flgB 5' UTR region, which reversibly generates ON vs. OFF orientations for the flagellar switch. We find that longer inverted repeat (IR) sequences in this switch region correlate with greater disease severity, with RT027 strains carrying 6A/6T IR sequences exhibiting greater phenotypic heterogeneity in flagellar gene expression (60%-75% ON) and causing more severe disease than those with shorter IRs (>99% ON or OFF). Our results reveal that phenotypic heterogeneity in flagellar gene expression may contribute to the variable disease severity observed in C. difficile patients.

Indexed as

Bacterial ProteinsClostridioides difficileFlagellaGene Expression Regulation, BacterialInverted Repeat Sequences5' Untranslated RegionsAnimalsClostridium InfectionsHumansMiceVirulence5' Untranslated RegionsBacterial ProteinsClostridioides difficileCP: Microbiologyflagellar switchinverted repeatsrecombinaseRT027virulence

Identifiers

PMID40504685
PMCPMC12282940

What OpenQuestion holds

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LicenceCC BY-NC-ND
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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.