Evidence map›Paper›PMID 42617598›Full record

ArticleCell systems2026

Single-cell transcriptional dynamics in a living vertebrate.

Elizabeth Eck, Bruno Moretti, Brandon H Schlomann, Jordão Bragantini, Merlin Lange, Xiang Zhao, Shruthi VijayKumar, Guillaume Valentin, Cristina Loureiro, Pablo Perez Franco and 6 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell systems, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed.

  1. Article
  2. Signal control during tissue regeneration in adult animals.Nature reviews. Molecular cell biology · 2026
    Review
  3. Review
  4. Article
  5. Article
  6. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

16 authors.

Elizabeth EckBiophysics Graduate Group, University of California, Berkeley, CA, USA.
Bruno MorettiDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA; Chan Zuckerberg Biohub, San Francisco, San Francisco, CA, USA.
Brandon H SchlomannDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA.
Jordão BragantiniChan Zuckerberg Biohub, San Francisco, San Francisco, CA, USA.
Merlin LangeChan Zuckerberg Biohub, San Francisco, San Francisco, CA, USA.
Xiang ZhaoChan Zuckerberg Biohub, San Francisco, San Francisco, CA, USA.
Shruthi VijayKumarChan Zuckerberg Biohub, San Francisco, San Francisco, CA, USA.
Guillaume ValentinCenter of PhenoGenomics, School of Life Sciences, EPFL, Swiss Federal Institute of Technology Lausanne, Lausanne, Switzerland.
Cristina LoureiroInstitute of Bioengineering, School of Life Sciences, Swiss Federal Institute of Technology Lausanne (EPFL), Lausanne, Switzerland.
Pablo Perez FrancoInstitute of Bioengineering, School of Life Sciences, Swiss Federal Institute of Technology Lausanne (EPFL), Lausanne, Switzerland.
Chloé JollivetInstitute of Bioengineering, School of Life Sciences, Swiss Federal Institute of Technology Lausanne (EPFL), Lausanne, Switzerland.
Virginie BramanInstitute of Bioengineering, School of Life Sciences, Swiss Federal Institute of Technology Lausanne (EPFL), Lausanne, Switzerland.
Baldemar MotomochiDepartment of Molecular and Cell Biology, University of California, Merced, Merced, CA, USA.
Loïc A RoyerChan Zuckerberg Biohub, San Francisco, San Francisco, CA, USA.
Andrew C OatesInstitute of Bioengineering, School of Life Sciences, Swiss Federal Institute of Technology Lausanne (EPFL), Lausanne, Switzerland; Department of Cell and Developmental Biology, UCL, London, UK; Francis Crick Institute, London, UK; Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany. Electronic address: andrew.oates@epfl.ch.
Hernan G GarciaDepartment of Molecular and Cell Biology, University of California, Berkeley, CA, USA; Department of Physics, University of California, Berkeley, CA, USA; Institute for Quantitative Biosciences-QB3, University of California, Berkeley, CA, USA; Chan Zuckerberg Biohub, San Francisco, San Francisco, CA, USA. Electronic address: hggarcia@berkeley.edu.

Funding

Uncovering single-cell transcriptional dynamics in somitogenesis in live zebrafish embryosR21HD107436 · NICHD · UNIVERSITY OF CALIFORNIA BERKELEY · PI GARCIA, HERNAN GUSTAVO · 2023 to 2023
$441k
NICHD NIH HHS R21 HD107436Wellcome Trust
6 · The paper itself

Abstract

The ability to follow transcription in individual cells with live imaging has revealed key dynamical mechanisms of gene regulation. However, such measurements are lacking in the context of vertebrate embryos. We addressed this deficit by applying MS2-MCP mRNA labeling to the quantification of transcription in zebrafish, a model vertebrate. We developed a platform of transgenic organisms, light-sheet fluorescence microscopy, and optimized image analysis that enables visualization and quantification of MS2 reporters. With these tools, we obtained single-cell, real-time measurements of the transcriptional dynamics of the segmentation clock. Our measurements reveal that smooth clock protein oscillations arise from discrete transcriptional bursts that are organized in space and time. Together, these results highlight how measuring single-cell transcriptional activity in the context of vertebrate organisms can reveal unexpected features of gene regulation and how this data can fuel the dialogue between theory and experiment.

Indexed as

light sheet fluorescence microscopysomitogenesistranscriptionzebrafish

Identifiers

PMID42617598
PMCPMC13522979

What OpenQuestion holds

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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.