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KLF2 controls thymic epithelial cell homeostasis, impacting regulatory T cell development and immune tolerance.

Overview

Authors: Pedro Ferreirinha1, Pedro M. Rodrigues1, Francisco Sobral1, Bruno Cavadas1, Nuno L. Alves1,2
ORCID iDs: Nuno L. Alves
  1. i3S - Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Porto, Portugal
  2. IBMC - Instituto de Biologia Molecular e Celular, Universidade do Porto, Porto, Portugal
Journal: iScience, volume 29, issue 4, article 115161
Dates: received 14 October 2025; accepted 23 February 2026; published online 3 March 2026
Type: Research article · Language: English
License: CC BY
Identifiers: DOI 10.1016/j.isci.2026.115161 · PMID 41884002 · PMCID PMC13010103 · OpenAlex W7133330395
Open access: gold, a free copy (OpenAlex)
Status: code verified
Categories: mouse (organism), cellular / molecular (subfield)
Methods: Machine learning
Keywords: biological sciences
Topic: Kruppel-like factors research (Molecular Biology, Biochemistry, Genetics and Molecular Biology), according to OpenAlex
Funding: ERC (637843); FEDER; POCI; Fundação para a Ciência e a Tecnologia (PTDC/MED-IMU/1416/2020, PTDC/MED-IMU/0888/2021); "la Caixa" Foundation (Caixa Foundation) (LCF/PR/HR23/52430019); VAC
Citations: not cited yet (Europe PMC); 50 references in the paper

Abstract

T cell development depends on specialized thymic microenvironments formed by cortical (c) and medullary (m) thymic epithelial cells (TECs), which arise from a common epithelial progenitor. However, the molecular mechanisms that govern TEC differentiation and function remain poorly understood. Particularly, mTECs display remarkable functional heterogeneity driven by complex genetic programs essential for central tolerance. Here, we investigated the role of the transcription factor KLF2 in TEC biology. TEC-specific deletion of KLF2 (KLF2 cKO) in mice impairs mTEC maintenance and selectively remodels transcriptional programs across cTEC and mTEC subsets, including several recently identified mimetic TECs. These perturbations imprint sustained thymic dysfunction and restrict regulatory T cell differentiation and function. Furthermore, KLF2 cKO mice show increased lymphocytic infiltration in peripheral tissues in aged and autoimmune-prone models, suggesting an increased susceptibility to the breakdown of immunological self-tolerance. Our findings highlight KLF2 as a critical regulator of TEC homeostasis and the prevention of autoimmunity.

Reproduced under the paper's license (CC BY), from the paper cited above.

Code

No file of the authors' code could be read here: it is described below, and read at its source.

ebi.ac.uk/ena

License: none: the authors keep all their rights
State: the link answers, verified on 30 September 2026
Evidence: the link answers
Software Heritage: not checked
Found in: the text, “RNA sequencing”
Not found: README, license file, CITATION.cff, environment file, tests, continuous integration, documentation
Availability: 1 check, the latest on 30 September 2026: the link answers (HTTP 200)
  • 30 September 2026: the link answers (HTTP 200)
At the source: ebi.ac.uk/ena

The paper's code and data availability statement is in the Data section.

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  • 0 scripts, each with its path and the digest of its content;
  • no match between paragraphs and code yet;
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Its JSON (tracing-map.json) is deposited on Zenodo with its DOI once the map is validated.

Data

No dataset and no data link were found in the paper.

Data and code availability

• Raw data regarding RNA sequencing reads in this study have been deposited to the European Nucleotide Archive (ENA; http://www.ebi.ac.uk/ena) along with the appropriate metadata and are publicly available with the accession identifier: PRJEB101061. Database and accession identifier are listed in the key resources table. • This study does not report original code. • Any additional information required to reanalyze the data reported in this article is available from the lead contact upon request.

Reproduced under the paper's license (CC BY), from the paper cited above.

Versions

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Version 1, 30 September 2026: the first record

Recorded: type, language, journal, volume, issue, pages, dates, 5 authors, 1 keyword, 6 funders, 49 references, 27 RRIDs.

Cite

This paper

Ferreirinha, P., Rodrigues, P. M., Sobral, F., Cavadas, B., & Alves, N. L. (2026). KLF2 controls thymic epithelial cell homeostasis, impacting regulatory T cell development and immune tolerance. iScience, 29(4), 115161. https://doi.org/10.1016/j.isci.2026.115161

BibTeX

@article{ferreirinha2026klf2,
author = {Ferreirinha, Pedro and Rodrigues, Pedro M. and Sobral, Francisco and Cavadas, Bruno and Alves, Nuno L.},
title = {{KLF2 controls thymic epithelial cell homeostasis, impacting regulatory T cell development and immune tolerance}},
journal = {iScience},
year = {2026},
month = mar,
volume = {29},
number = {4},
pages = {115161},
publisher = {Elsevier},
issn = {2589-0042},
doi = {10.1016/j.isci.2026.115161},
url = {https://doi.org/10.1016/j.isci.2026.115161},
pmid = {41884002},
pmcid = {PMC13010103}
}

RIS

TY - JOUR
AU - Ferreirinha, Pedro
AU - Rodrigues, Pedro M.
AU - Sobral, Francisco
AU - Cavadas, Bruno
AU - Alves, Nuno L.
TI - KLF2 controls thymic epithelial cell homeostasis, impacting regulatory T cell development and immune tolerance
T2 - iScience
J2 - iScience
PY - 2026
DA - 2026/03/03
VL - 29
IS - 4
SP - 115161
SN - 2589-0042
PB - Elsevier
DO - 10.1016/j.isci.2026.115161
UR - https://doi.org/10.1016/j.isci.2026.115161
LA - en
ER -

CSL-JSON

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