Evidence map›Paper›PMID 40379932›Full record

ArticleNature microbiology2025

scRNA-seq reveals transcriptional plasticity of var gene expression in Plasmodium falciparum for host immune avoidance.

Francesca Florini, Joseph E Visone, Evi Hadjimichael, Shivali Malpotra, Christopher Nötzel, Björn F C Kafsack, Kirk W Deitsch

Abstract read
In one paragraph

Article in Nature microbiology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing 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

8 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Epigenetics and chromatin structure regulatebioRxiv : the preprint server for biology · 2026
    Article
  7. Review
  8. Advances in Single-Cell Sequencing for Infectious Diseases: Progress and Perspectives.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025
    Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

7 authors.

Francesca Florini *Department of Microbiology and Immunology, Weill Cornell Medical College, New York, NY, USA.ORCID http://orcid.org/0000-0003-2579-3820
Joseph E Visone *Department of Microbiology and Immunology, Weill Cornell Medical College, New York, NY, USA.
Evi HadjimichaelDepartment of Microbiology and Immunology, Weill Cornell Medical College, New York, NY, USA.
Shivali MalpotraDepartment of Microbiology and Immunology, Weill Cornell Medical College, New York, NY, USA.ORCID http://orcid.org/0009-0008-8274-6709
Christopher NötzelDepartment of Pathobiology, University of Pennsylvania School of Veterinary Medicine, Philadelphia, PA, USA.ORCID http://orcid.org/0000-0001-6065-889X
Björn F C KafsackDepartment of Microbiology and Immunology, Weill Cornell Medical College, New York, NY, USA.ORCID http://orcid.org/0000-0003-0089-1096
Kirk W DeitschDepartment of Microbiology and Immunology, Weill Cornell Medical College, New York, NY, USA. kwd2001@med.cornell.edu.ORCID http://orcid.org/0000-0002-9183-2480

Funding

Mechanisms of environmental sensing and responses by malaria parasitesR01AI138499 · NIAID · WEILL MEDICAL COLL OF CORNELL UNIV · PI DEITSCH, KIRK W · 2018 to 2022
$3.7M
A structured transcriptional switching network that coordinates antigenic variation by malaria parasitesR01AI161299 · NIAID · WEILL MEDICAL COLL OF CORNELL UNIV · PI Kirk W Deitsch · 2021 to 2026
$3.4M
A Molecular Switch Controlling Antigenic Variation in Malaria ParasitesF31AI164897 · NIAID · WEILL MEDICAL COLL OF CORNELL UNIV · PI VISONE, JOSEPH EDWARD · 2022 to 2024
$143k
NIAID NIH HHS R01 AI138499NIAID NIH HHS R01 AI161299Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung (Swiss National Science Foundation) P2BEP3_191777U.S. Department of Health & Human Services | NIH | Office of Extramural Research, National Institutes of Health (OER) AI 52390U.S. Department of Health & Human Services | NIH | Office of Extramural Research, National Institutes of Health (OER) AI 99327U.S. Department of Health & Human Services | NIH | Office of Extramural Research, National Institutes of Health (OER) F31AI164897
6 · The paper itself

Abstract

Plasmodium falciparum evades antibody recognition through transcriptional switching between members of the var gene family, which encodes the major virulence factor and surface antigen on infected red blood cells. Previous work with clonal P. falciparum populations revealed var gene expression profiles inconsistent with uniform single var gene expression. However, the mechanisms underpinning this and how it might contribute to chronic infections were unclear. Here, using single-cell transcriptomics employing enrichment probes and a portable microwell system, we analysed var gene expression in clonal 3D7 and IT4 parasite lines. We show that in addition to mono-allelic var gene expression, individual parasites can simultaneously express multiple var genes or enter a state in which little or no var gene expression is detectable. Reduced var gene expression resulted in greatly decreased antibody recognition of infected cells. This transcriptional flexibility provides parasites with greater adaptive capacity and could explain the antigenically 'invisible' parasites observed in chronic asymptomatic infections.

Indexed as

Immune EvasionPlasmodium falciparumProtozoan ProteinsAntibodies, ProtozoanAntigens, ProtozoanErythrocytesGene Expression ProfilingHost-Parasite InteractionsHumansMalaria, FalciparumRNA-SeqSingle-Cell AnalysisSingle-Cell Gene Expression AnalysisTranscription, GeneticTranscriptomeAntibodies, ProtozoanAntigens, Protozoanerythrocyte membrane protein 1, Plasmodium falciparumProtozoan Proteins

Identifiers

PMID40379932
PMCPMC13321130

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.