Evidence map›Paper›PMID 40790037›Full record

ArticleNature communications2025

Unique metabolic regulation of micromeres contributes to gastrulation in the sea urchin embryo.

Shakson Isaac, Douglas Dubosky, Ashley Waldron, Natsuko Emura, Aidan Furze, Kavya Rao, Masaru Mori, Ashok Ragavendran, Hideki Makinoshima, Mamiko Yajima

Abstract read
In one paragraph

Article in Nature communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

10 authors.

Shakson Isaac *Department of Molecular Biology, Cell Biology & Biochemistry, Brown University, Providence, RI, USA.ORCID http://orcid.org/0000-0001-5631-3469
Douglas Dubosky *Department of Molecular Biology, Cell Biology & Biochemistry, Brown University, Providence, RI, USA.
Ashley WaldronDepartment of Molecular Biology, Cell Biology & Biochemistry, Brown University, Providence, RI, USA.
Natsuko EmuraDepartment of Molecular Biology, Cell Biology & Biochemistry, Brown University, Providence, RI, USA.
Aidan FurzeDepartment of Molecular Biology, Cell Biology & Biochemistry, Brown University, Providence, RI, USA.
Kavya RaoDepartment of Molecular Biology, Cell Biology & Biochemistry, Brown University, Providence, RI, USA.ORCID http://orcid.org/0000-0001-7261-1765
Masaru MoriInstitute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan.
Ashok RagavendranCenter for Computational Biology of Human Disease and Center for Computation and Visualization, Brown University, Providence, RI, USA.
Hideki MakinoshimaInstitute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, Japan.ORCID http://orcid.org/0009-0001-8181-6241
Mamiko YajimaDepartment of Molecular Biology, Cell Biology & Biochemistry, Brown University, Providence, RI, USA. mamiko_yajima@brown.edu.ORCID http://orcid.org/0000-0002-5613-1005

Funding

The role of Sirtuins in neurodegenerative diseaseP20GM109035 · NIGMS · BROWN UNIVERSITY · PI WONG, IAN Y · 2016 to 2025
$22.6M
Localized mRNA translation on the spindle -an essential mechanism for embryonic cell regulationR01GM126043 · NIGMS · BROWN UNIVERSITY · PI YAJIMA, MAMIKO · 2018 to 2022
$2.0M
Molecular mechanism of Vasa function in localized mRNA translation on the spindleR35GM157961 · NIGMS · BROWN UNIVERSITY · PI Mamiko Yajima · 2025 to 2026
$877k
Functional contribution of Metabolism in embryonic developmentR21HD109132 · NICHD · BROWN UNIVERSITY · PI YAJIMA, MAMIKO · 2022 to 2023
$439k
National Science Foundation (NSF) IOS-1940975NICHD NIH HHS R21 HD109132NIGMS NIH HHS P20 GM109035NIGMS NIH HHS R01 GM126043NIGMS NIH HHS R35 GM157961U.S. Department of Health & Human Services | NIH | Eunice Kennedy Shriver National Institute of Child Health and Human Development (NICHD) 1R21HD109132-01U.S. Department of Health & Human Services | NIH | National Institute of General Medical Sciences (NIGMS) 1R01GM126043-01
6 · The paper itself

Abstract

During development, a group of cells called organizers plays critical roles by sending signals to adjacent cells and controlling embryonic and tissue patterning. Recent studies suggest that these inductive cells facilitate the downstream signaling pathways conserved across organisms. However, what makes these cells fundamentally inductive is little understood. In this study, we demonstrate that the micromeres of the sea urchin, one of the known organizers, have distinct metabolic properties compared to the rest of the embryo. The specific metabolic inhibitors for sugar metabolism (2-DG), fatty acid synthesis (cerulenin), and N-linked glycosylation (tunicamycin) compromise micromeres' regulatory capacity, altering the downstream germ layer patterning in the resultant embryos. Notably, the endoplasmic reticulum (ER) asymmetrically localizes during asymmetric cell division, resulting in the enrichment of ER and Wnt protein at the vegetal cortex of micromeres. Metabolic inhibition appears to compromise ER activity in Wnt particle distribution. We propose that the micromere ER is sensitive to specific metabolic regulation, contributing to the inductive signaling activity. This study provides a paradigm of how ER and metabolic regulation contribute to the inductive capability of the cells.

Indexed as

Embryo, NonmammalianGastrulationSea UrchinsAnimalsEndoplasmic ReticulumGlycosylationSignal TransductionTunicamycinWnt ProteinsTunicamycinWnt Proteins

Identifiers

PMID40790037
PMCPMC12340151

What Socratic holds

Textmetadata
LicenceCC BY-NC-ND
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 Socratic graph.