Evidence map›Paper›PMID 40086446›Full record

ArticleStem cell reports2025

Differentiation success of reprogrammed cells is heterogeneous in vivo and modulated by somatic cell identity memory.

Tomas Zikmund, Jonathan Fiorentino, Chris Penfold, Marco Stock, Polina Shpudeiko, Gaurav Agarwal, Larissa Langfeld, Kseniya Petrova, Leonid Peshkin, Stephan Hamperl and 2 more

Abstract read
In one paragraph

Article in Stem cell reports, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. Review
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

12 authors.

Tomas ZikmundInstitute of Epigenetics and Stem Cells, Helmholtz Zentrum München, German Research Center for Environmental Health, 81377 Munich, Germany.
Jonathan FiorentinoInstitute of Epigenetics and Stem Cells, Helmholtz Zentrum München, German Research Center for Environmental Health, 81377 Munich, Germany; Institute of Functional Epigenetics, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg 85764, Germany; Institute of Computational Biology, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg 85764, Germany.
Chris PenfoldWellcome Trust/Cancer Research, Gurdon Institute, University of Cambridge, Cambridge, UK.
Marco StockInstitute of Epigenetics and Stem Cells, Helmholtz Zentrum München, German Research Center for Environmental Health, 81377 Munich, Germany; Institute of Functional Epigenetics, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg 85764, Germany; Institute of Computational Biology, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg 85764, Germany; TUM School of Life Sciences Weihenstephan, Technical University of Munich, 85354 Freising, Germany.
Polina ShpudeikoInstitute of Epigenetics and Stem Cells, Helmholtz Zentrum München, German Research Center for Environmental Health, 81377 Munich, Germany; Institute of Functional Epigenetics, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg 85764, Germany; Institute of Computational Biology, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg 85764, Germany.
Gaurav AgarwalWellcome Trust/Cancer Research, Gurdon Institute, University of Cambridge, Cambridge, UK.
Larissa LangfeldInstitute of Epigenetics and Stem Cells, Helmholtz Zentrum München, German Research Center for Environmental Health, 81377 Munich, Germany.
Kseniya PetrovaSystems Biology, Harvard Medical School, Boston, MA 02115, USA.
Leonid PeshkinSystems Biology, Harvard Medical School, Boston, MA 02115, USA.
Stephan HamperlInstitute of Epigenetics and Stem Cells, Helmholtz Zentrum München, German Research Center for Environmental Health, 81377 Munich, Germany.
Antonio ScialdoneInstitute of Epigenetics and Stem Cells, Helmholtz Zentrum München, German Research Center for Environmental Health, 81377 Munich, Germany; Institute of Functional Epigenetics, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg 85764, Germany; Institute of Computational Biology, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg 85764, Germany. Electronic address: antonio.scialdone@helmholtz-munich.de.
Eva HoermansederInstitute of Epigenetics and Stem Cells, Helmholtz Zentrum München, German Research Center for Environmental Health, 81377 Munich, Germany. Electronic address: eva.hoermanseder@helmholtz-munich.de.

Funding

XenCAT: Xenopus Single Cell AtlasR24OD031956 · OD · HARVARD MEDICAL SCHOOL · PI PESHKIN, LEON · 2022 to 2025
$3.5M
Medical Research CouncilNIH HHS R24 OD031956
6 · The paper itself

Abstract

Nuclear reprogramming can change cellular fates. Yet, reprogramming efficiency is low, and the resulting cell types are often not functional. Here, we used nuclear transfer to eggs to follow single cells during reprogramming in vivo. We show that the differentiation success of reprogrammed cells varies across cell types and depends on the expression of genes specific to the previous cellular identity. We find subsets of reprogramming-resistant cells that fail to form functional cell types, undergo cell death, or disrupt normal body patterning. Reducing expression levels of genes specific to the cell type of origin leads to better reprogramming and improved differentiation trajectories. Thus, our work demonstrates that failing to reprogram in vivo is cell type specific and emphasizes the necessity of minimizing aberrant transcripts of the previous somatic identity for improving reprogramming.

Indexed as

Cell DifferentiationCellular ReprogrammingInduced Pluripotent Stem CellsAnimalsMiceNuclear Transfer Techniquesearly embryonic developmentin vivo reprogrammingmucocilliary epitheliumnuclear transfersingle cell RNAseqXenopus

Identifiers

PMID40086446
PMCPMC12069884

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.