Evidence map›Paper›PMID 39890933›Full record

ArticleNature immunology2025

Temporal profiling of human lymphoid tissues reveals coordinated defense against viral challenge.

Matthew L Coates, Nathan Richoz, Zewen K Tuong, Georgina S Bowyer, Colin Y C Lee, John R Ferdinand, Eleanor Gillman, Mark McClure, Lisa Dratva, Sarah A Teichmann and 4 more

Abstract read
In one paragraph

Article in Nature immunology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing 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

15 citing papers in PubMed.

  1. Article
  2. Macrophage heterogeneity in human secondary lymphoid organs.Clinical science (London, England : 1979) · 2026
    Review
  3. Review
  4. Germinal center responses at barrier organ sites.Current opinion in immunology · 2026
    Review
  5. Review
  6. Highlights of 2025: advances in germinal centers.Immunology and cell biology · 2026
    Review
  7. Article
  8. Article
  9. Review
  10. Review
  11. Article
  12. Frontiers in pediatrics · 2026
    Article
  13. Article
  14. Review
  15. Article
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

14 authors.

Matthew L Coates *Department of Medicine, Molecular Immunity Unit, University of Cambridge, Cambridge, UK.ORCID http://orcid.org/0000-0002-7301-1726
Nathan Richoz *Department of Medicine, Molecular Immunity Unit, University of Cambridge, Cambridge, UK.
Zewen K Tuong *Department of Medicine, Molecular Immunity Unit, University of Cambridge, Cambridge, UK.ORCID http://orcid.org/0000-0002-6735-6808
Georgina S Bowyer *Department of Medicine, Molecular Immunity Unit, University of Cambridge, Cambridge, UK.
Colin Y C LeeDepartment of Medicine, Molecular Immunity Unit, University of Cambridge, Cambridge, UK.ORCID http://orcid.org/0000-0001-8380-4917
John R FerdinandDepartment of Medicine, Molecular Immunity Unit, University of Cambridge, Cambridge, UK.
Eleanor GillmanDepartment of Medicine, Molecular Immunity Unit, University of Cambridge, Cambridge, UK.ORCID http://orcid.org/0000-0002-4221-7270
Mark McClureDepartment of Medicine, Molecular Immunity Unit, University of Cambridge, Cambridge, UK.
Lisa DratvaCellular Genetics, Wellcome Sanger Institute, Hinxton, UK.ORCID http://orcid.org/0000-0002-2873-6787
Sarah A TeichmannCellular Genetics, Wellcome Sanger Institute, Hinxton, UK.ORCID http://orcid.org/0000-0002-6294-6366
David R JayneCambridge Institute for Therapeutic Immunology and Infectious Diseases, Cambridge, UK.
Rafael Di Marco BarrosDepartment of Medicine, Molecular Immunity Unit, University of Cambridge, Cambridge, UK.
Benjamin J StewartDepartment of Medicine, Molecular Immunity Unit, University of Cambridge, Cambridge, UK.ORCID http://orcid.org/0000-0003-4522-0085
Menna R ClatworthyDepartment of Medicine, Molecular Immunity Unit, University of Cambridge, Cambridge, UK. mrc38@medschl.cam.ac.uk.ORCID http://orcid.org/0000-0002-3340-9828

Funding

Wellcome TrustWellcome Trust (Wellcome) 227890/Z/23/Z
6 · The paper itself

Abstract

Adaptive immunity is generated in lymphoid organs, but how these structures defend themselves during infection in humans is unknown. The nasal epithelium is a major site of viral entry, with adenoid nasal-associated lymphoid tissue (NALT) generating early adaptive responses. In the present study, using a nasopharyngeal biopsy technique, we investigated longitudinal immune responses in NALT after a viral challenge, using severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection as a natural experimental model. In acute infection, infiltrating monocytes formed a subepithelial and perifollicular shield, recruiting neutrophil extracellular trap-forming neutrophils, whereas tissue macrophages expressed pro-repair molecules during convalescence to promote the restoration of tissue integrity. Germinal center B cells expressed antiviral transcripts that inversely correlated with fate-defining transcription factors. Among T cells, tissue-resident memory CD8 T cells alone showed clonal expansion and maintained cytotoxic transcriptional programs into convalescence. Together, our study provides unique insights into how human nasal adaptive immune responses are generated and sustained in the face of viral challenge.

Indexed as

COVID-19Lymphoid TissueNasal MucosaSARS-CoV-2Adaptive ImmunityAdultB-LymphocytesCD8-Positive T-LymphocytesFemaleGerminal CenterHumansImmunologic MemoryMacrophagesMaleMonocytesNeutrophils

Identifiers

PMID39890933
PMCPMC11785532

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Registered trials

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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.