Evidence map›Paper›PMID 39153479›Full record

ArticleImmunity2024

BCG vaccination alters the epigenetic landscape of progenitor cells in human bone marrow to influence innate immune responses.

Sarah J Sun, Raúl Aguirre-Gamboa, L Charlotte J de Bree, Joaquin Sanz, Anne Dumaine, Walter J F M van der Velden, Leo A B Joosten, Shabaana Khader, Maziar Divangahi, Mihai G Netea and 1 more

Abstract read
In one paragraph

Article in Immunity, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 48 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
48citing papers in PubMed, 2 pooled it
–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

48 citing papers in PubMed, 2 syntheses or guidelines pooled it.

  1. Pooled it
  2. Pooled it
  3. Route of BCG administration determines success.Human vaccines & immunotherapeutics · 2026
    Review
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  6. Article
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  11. InactivatedVaccines · 2026
    Article
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  16. Dysregulated Bone Marrow Contributes to Glomerular Injury through Soluble Factors.Journal of the American Society of Nephrology : JASN · 2026
    Article
  17. Article
  18. Review
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  20. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

11 authors.

Sarah J SunCommittee on Immunology, University of Chicago, Chicago, IL, USA; Medical Scientist Training Program, University of Chicago, Chicago, IL, USA.
Raúl Aguirre-GamboaSection of Genetic Medicine, Department of Medicine, University of Chicago, Chicago, IL, USA.
L Charlotte J de BreeDepartment of Internal Medicine and Radbound Center for Infectious Diseases, Radboud University Medical Center, Nijmegen, the Netherlands.
Joaquin SanzInstitute for Biocomputation and Physics of Complex Systems (BIFI) and Department of Theoretical Physics, University of Zaragoza, Zaragoza, Spain.
Anne DumaineSection of Genetic Medicine, Department of Medicine, University of Chicago, Chicago, IL, USA.
Walter J F M van der VeldenDepartment of Haematology, Radboud University Medical Center, Nijmegen, the Netherlands.
Leo A B JoostenDepartment of Internal Medicine and Radbound Center for Infectious Diseases, Radboud University Medical Center, Nijmegen, the Netherlands; Department of Medical Genetics, Iuliu Hatieganu University of Medicine and Pharmacy, Cluj-Napoca, Romania.
Shabaana KhaderDepartment of Microbiology, University of Chicago, Chicago, IL, USA.
Maziar DivangahiDepartment of Internal Medicine and Radbound Center for Infectious Diseases, Radboud University Medical Center, Nijmegen, the Netherlands; Department of Medicine, Meakins-Christie Laboratories, Research Institute McGill University Health Centre, McGill University, Montreal, QC, Canada.
Mihai G NeteaDepartment of Internal Medicine and Radbound Center for Infectious Diseases, Radboud University Medical Center, Nijmegen, the Netherlands; Department of Immunology and Metabolism, Life and Medical Sciences Institute, University of Bonn, Bonn, Germany.
Luis B BarreiroCommittee on Immunology, University of Chicago, Chicago, IL, USA; Section of Genetic Medicine, Department of Medicine, University of Chicago, Chicago, IL, USA; Department of Human Genetics, University of Chicago, Chicago, IL, USA; Committee on Genetics, Genomics, and Systems Biology, University of Chicago, Chicago, IL, USA. Electronic address: lbarreiro@uchicago.edu.

Funding

ULTRASTRUCTURE AND CYTOMORPHOLOGY COREP30DK042086 · NIDDK · UNIVERSITY OF CHICAGO · PI CHANG, EUGENE B · 1990 to 2025
$29.8M
Medical Scientist National Research Service AwardT32GM150375 · NIGMS · UNIVERSITY OF CHICAGO · PI Raghavendra G Mirmira · 2023 to 2026
$5.5M
Characterizing the impact of Yersinia Pestis to the phenotypic evolution of the human immune systemR01GM134376 · NIGMS · UNIVERSITY OF CHICAGO · PI BARREIRO, LUIS BRUNO · 2019 to 2022
$2.2M
Probing short and long term consequences of Small and Large Bowel Microbiota Transplants on Host Physiology: Implications for the development of future live biotherapeuticsR01DK138072 · NIDDK · UNIVERSITY OF CHICAGO · PI EUGENE B CHANG, Kristina Brooke Martinez-Guryn · 2024 to 2026
$2.1M
Characterizing the genetic and evolutionary determinants of population variation in transcriptional responses to pathogensR35GM152227 · NIGMS · UNIVERSITY OF CHICAGO · PI Luis Bruno Barreiro · 2024 to 2026
$1.6M
NIDDK NIH HHS P30 DK042086NIDDK NIH HHS R01 DK138072NIGMS NIH HHS R01 GM134376NIGMS NIH HHS R35 GM152227NIGMS NIH HHS T32 GM150375
6 · The paper itself

Abstract

Although the Bacille-Calmette-Guérin (BCG) vaccine is used to prevent tuberculosis, it also offers protection against a diverse range of non-mycobacterial infections. However, the underlying protective mechanisms in humans are not yet fully understood. Here, we surveyed at single-cell resolution the gene expression and chromatin landscape of human bone marrow, aspirated before and 90 days after BCG vaccination or placebo. We showed that BCG alters both the gene expression and epigenetic profiles of human hematopoietic stem and progenitor cells (HSPCs). Changes in gene expression occurred primarily within uncommitted stem cells. By contrast, changes in chromatin accessibility were most prevalent within differentiated progenitor cells at sites influenced by Kruppel-like factor (KLF) and early growth response (EGR) transcription factors and were highly correlated (r > 0.8) with the interleukin (IL)-1β secretion capacity of paired peripheral blood mononuclear cells (PBMCs). Our findings shed light on BCG vaccination's profound and lasting effects on HSPCs and its influence on innate immune responses and trained immunity.

Indexed as

BCG VaccineEpigenesis, GeneticImmunity, InnateVaccinationAdultBone MarrowCell DifferentiationChromatinFemaleHematopoietic Stem CellsHumansInterleukin-1betaKruppel-Like Transcription FactorsLeukocytes, MononuclearMaleTuberculosisBCG VaccineChromatinInterleukin-1betaKruppel-Like Transcription FactorsBCG vaccinationhematopoietic stem cellsinnate immunitysingle-cell genomicstrained immunity

Identifiers

PMID39153479
PMCPMC11604037

What OpenQuestion holds

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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.