Evidence map›Paper›PMID 41284866›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2025

VGLL1 contributes to both the transcriptome and epigenome of the developing trophoblast compartment.

Ruben I Calderon, Nirvay Sah, Molly Huang, Sampada Kallol, Ryan H Kittle, Walee B Shaik, Ahmed Abdelbaki, Jennifer N Chousal, Robert Morey, Tony Bui and 12 more

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 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. VGLL1 contributes to both the transcriptome and epigenome of the developing trophoblast compartment.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

22 authors.

Ruben I CalderonDepartment of Pathology, University of California San Diego, La Jolla, CA 92093.
Nirvay SahDepartment of Pathology, University of California San Diego, La Jolla, CA 92093.ORCID 0000-0002-2788-3646
Molly HuangDepartment of Obstetrics, Gynecology, and Reproductive Sciences, School of Medicine, University of California San Diego, La Jolla, CA 92093.
Sampada KallolDepartment of Pathology, University of California San Diego, La Jolla, CA 92093.
Ryan H KittleDepartment of Pathology, University of California San Diego, La Jolla, CA 92093.ORCID 0009-0007-1147-5190
Walee B ShaikDepartment of Pathology, University of California San Diego, La Jolla, CA 92093.
Ahmed AbdelbakiDepartment of Zoology, Faculty of Science, Zagazig University, Zagazig 44519, Egypt.
Jennifer N ChousalDepartment of Pathology, University of California San Diego, La Jolla, CA 92093.ORCID 0000-0002-8725-6142
Robert MoreyDepartment of Pathology, University of California San Diego, La Jolla, CA 92093.ORCID 0000-0001-8480-4564
Tony BuiDepartment of Pathology, University of California San Diego, La Jolla, CA 92093.
Alejandra MitreDepartment of Pathology, University of California San Diego, La Jolla, CA 92093.
Norah M E FogartyHuman Embryo and Stem Cell Laboratory, The Francis Crick Institute, London NW1 1AT, United Kingdom.
Claudia GerriHuman Embryo and Stem Cell Laboratory, The Francis Crick Institute, London NW1 1AT, United Kingdom.ORCID 0000-0002-9046-3820
Zoe ManaloDepartment of Pathology, University of California San Diego, La Jolla, CA 92093.ORCID 0009-0001-9956-2761
Claire ZhengDepartment of Pathology, University of California San Diego, La Jolla, CA 92093.
Peter De HoffDepartment of Obstetrics, Gynecology, and Reproductive Sciences, School of Medicine, University of California San Diego, La Jolla, CA 92093.ORCID 0000-0002-0163-7535
Pratik HomeDepartment of Pathology and Laboratory Medicine and Institute for Reproductive and Developmental Sciences, University of Kansas Medical Center, Kansas City, KS 66160.ORCID 0000-0002-3159-1603
Kathy K NiakanHuman Embryo and Stem Cell Laboratory, The Francis Crick Institute, London NW1 1AT, United Kingdom.
Heidi Cook-AndersenDepartment of Obstetrics, Gynecology, and Reproductive Sciences, School of Medicine, University of California San Diego, La Jolla, CA 92093.
Kathleen M FischDepartment of Obstetrics, Gynecology, and Reproductive Sciences, School of Medicine, University of California San Diego, La Jolla, CA 92093.ORCID 0000-0002-0117-7444
Soumen PaulDepartment of Pathology and Laboratory Medicine and Institute for Reproductive and Developmental Sciences, University of Kansas Medical Center, Kansas City, KS 66160.ORCID 0000-0002-4752-4800
Francesca SoncinDepartment of Pathology, University of California San Diego, La Jolla, CA 92093.ORCID 0000-0002-7423-9167

Funding

UC San Diego Clinical and Translational Research InstituteUL1TR001442 · NCATS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI FIRESTEIN, GARY S, HOGARTH, MICHAEL · 2015 to 2024
$88.3M
CTSA UM1 Program at University of California San Diego Altman Clinical and Translational Research InstituteUM1TR005449 · NCATS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Michael A Hogarth, David Mitchell Smith · 2025 to 2026
$20.6M
GATA Factor Function in TrophoblastR01HD062546 · NICHD · UNIVERSITY OF KANSAS MEDICAL CENTER · PI Soumen Paul, Geetu Tuteja · 2010 to 2026
$4.9M
UC San Diego Genetics Training ProgramT32GM145427 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI BRUCE A HAMILTON · 2022 to 2026
$2.6M
Role of VGLL1 in human placental development and trophoblast specificationR01HD096260 · NICHD · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI SONCIN, FRANCESCA · 2019 to 2023
$2.5M
Hippo Signaling Effector and PlacentationR01HD101319 · NICHD · UNIVERSITY OF KANSAS MEDICAL CENTER · PI PAUL, SOUMEN · 2020 to 2024
$2.3M
Histone Demethylases and Trophoblast DifferentiationtR01HD103161 · NICHD · UNIVERSITY OF KANSAS MEDICAL CENTER · PI PAUL, SOUMEN · 2021 to 2025
$2.1M
Deciphering the role of METTL3 in Mammalian Placenta Development and Maintenance Across PregnancyR01HD113673 · NICHD · UNIVERSITY OF KANSAS MEDICAL CENTER · PI Soumen Paul · 2024 to 2026
$1.6M
Gene regulatory mechanisms driving development during transcriptional silence from oocyte to embryo in mammalsR35GM157073 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Heidi Cook-Andersen · 2025 to 2026
$947k
Illumina NovaSeq 6000 Sequencing SystemS10OD026929 · OD · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI JEPSEN, KRISTEN LYNN · 2019 to 2019
$600k
Protein Arginine Methyl Transferase and Hemochorial PlacentationR21HD119510 · NICHD · UNIVERSITY OF KANSAS MEDICAL CENTER · PI PAUL, SOUMEN · 2025 to 2025
$426k
California Institute for Regenerative Medicine (CIRM) DISC0-13757California Institute for Regenerative Medicine (CIRM) DISC0-13816California Institute for Regenerative Medicine (CIRM) EDUC4-12804HHS | NIH | Eunice Kennedy Shriver National Institute of Child Health and Human Development (NICHD) R01HD096260HHS | NIH (NIH) GM145427HHS | NIH (NIH) HD062546HHS | NIH (NIH) HD101319HHS | NIH (NIH) HD103161HHS | NIH (NIH) HD113673HHS | NIH (NIH) HD119510HHS | NIH (NIH) UL1TR001442NCATS NIH HHS UL1 TR001442NCATS NIH HHS UM1 TR005449NICHD NIH HHS R01 HD062546NICHD NIH HHS R01 HD096260NICHD NIH HHS R01 HD101319NICHD NIH HHS R01 HD103161NICHD NIH HHS R01 HD113673NICHD NIH HHS R21 HD119510NIGMS NIH HHS R35 GM157073NIGMS NIH HHS T32 GM145427NIH HHS S10 OD026929Wellcome Trust CC2074Wellcome Trust (WT) 221856/Z/20/Z
6 · The paper itself

Abstract

The trophectoderm (TE), the first lineage specified during mammalian development, initiates implantation and gives rise to placental trophoblasts. While animal models have elucidated key conserved signaling pathways involved in early TE specification, including bone morphogenetic protein (BMP), WNT, and HIPPO, species-specific differences during early development emphasize the need for human-specific models. We previously identified VGLL1, a coactivator of TEAD transcription factors, as a human-specific placental marker. In this study, we employed a pluripotent stem cell (PSC)-based model of TE induction by BMP4 to investigate chromatin remodeling and transcriptional dynamics during TE formation. BMP4-induced chromatin accessibility changes promoted a trophoblast gene expression program, while mesoderm lineage markers were only transiently expressed upon canonical WNT activation. We found that VGLL1 was expressed downstream of key TE transcription factors (GATA2/3, TFAP2A/C) but was essential for establishment of full trophoblast identity by up-regulating the epidermal growth factor receptor (EGFR) and reinforcing GATA3 expression through positive feedback. Notably, VGLL1 enhanced canonical WNT signaling via direct regulation of WNT receptors and effectors. We also identified KDM6B, a histone demethylase that removes H3K27me3 repressive marks, as a direct VGLL1 target. KDM6B facilitated activation of bivalent promoters associated with TE markers, linking epigenetic regulation to lineage identity. Our findings establish a mechanistic framework positioning VGLL1 as a central regulator that integrates HIPPO, BMP, and WNT signaling pathways to drive establishment of human TE.

Indexed as

EpigenomeTranscription FactorsTranscriptomeTrophoblastsBone Morphogenetic Protein 4Epigenesis, GeneticFemaleGene Expression Regulation, DevelopmentalHumansPluripotent Stem CellsPregnancyWnt Signaling PathwayBMP4 protein, humanBone Morphogenetic Protein 4Transcription Factorspluripotent stem cellstrophectodermtrophoblast stem cellsVGLL1

Identifiers

PMID41284866
PMCPMC12685074

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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.