Evidence map›Paper›PMID 40401629›Full record

ArticleDisease models & mechanisms2025

Effects of alcohol on the transcriptome, methylome and metabolome of in vitro gastrulating human embryonic cells.

E Wallén, K Rämö, J Vehviläinen, J Sokka, M Lehtonen, T Otonkoski, R Trokovic, P Auvinen, O Kärkkäinen, N Kaminen-Ahola

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Disease models & mechanisms, 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. Article
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.

E WallénEnvironmental Epigenetics Laboratory, Department of Medical and Clinical Genetics, Medicum, Faculty of Medicine, University of Helsinki, 00290 Helsinki, Finland.ORCID 0000-0002-9926-0106
K RämöEnvironmental Epigenetics Laboratory, Department of Medical and Clinical Genetics, Medicum, Faculty of Medicine, University of Helsinki, 00290 Helsinki, Finland.ORCID 0000-0001-8070-4785
J VehviläinenEnvironmental Epigenetics Laboratory, Department of Medical and Clinical Genetics, Medicum, Faculty of Medicine, University of Helsinki, 00290 Helsinki, Finland.ORCID 0000-0002-1871-7339
J SokkaResearch Programs Unit, Stem Cells and Metabolism and Biomedicum Stem Cell Centre, Faculty of Medicine, University of Helsinki, 00290 Helsinki, Finland.ORCID 0000-0002-0377-8841
M LehtonenSchool of Pharmacy, Faculty of Health Sciences, University of Eastern Finland, 70211 Kuopio, Finland.ORCID 0000-0002-5611-0466
T OtonkoskiResearch Programs Unit, Stem Cells and Metabolism and Biomedicum Stem Cell Centre, Faculty of Medicine, University of Helsinki, 00290 Helsinki, Finland.ORCID 0000-0001-9190-2496
R TrokovicResearch Programs Unit, Stem Cells and Metabolism and Biomedicum Stem Cell Centre, Faculty of Medicine, University of Helsinki, 00290 Helsinki, Finland.ORCID 0000-0002-3065-6663
P AuvinenEnvironmental Epigenetics Laboratory, Department of Medical and Clinical Genetics, Medicum, Faculty of Medicine, University of Helsinki, 00290 Helsinki, Finland.ORCID 0000-0001-7865-0482
O KärkkäinenSchool of Pharmacy, Faculty of Health Sciences, University of Eastern Finland, 70211 Kuopio, Finland.ORCID 0000-0003-0825-4956
N Kaminen-AholaEnvironmental Epigenetics Laboratory, Department of Medical and Clinical Genetics, Medicum, Faculty of Medicine, University of Helsinki, 00290 Helsinki, Finland.ORCID 0000-0003-1255-4716

Funding

Academy of Finland 332212AlkoholitutkimussAlkoholitutkimussäätiöHelsinki University LibraryJane ja Aatos Erkon SäätiöLastentautien TutkimussLastentautien TutkimussäätiöResearch Council of Finland 332212Yrjö Jahnssonin Säätiö
6 · The paper itself

Abstract

Prenatal alcohol exposure (PAE) affects embryonic development, causing a variable fetal alcohol spectrum disorder (FASD) phenotype with neurodevelopmental disorders and birth defects. To explore the effects of PAE on gastrulation, we used an in vitro model with subchronic moderate (20 mM) and severe (70 mM) ethanol exposures during the differentiation of human embryonic stem cells into germ layer cells. We analyzed genome-wide gene expression (mRNA sequencing), DNA methylation (EPIC Illumina microarrays) and metabolome (non-targeted LC-MS) of the endodermal, mesodermal and ectodermal cells. The largest number of ethanol-induced alterations were observed in endodermal cells, whereas the most prominent changes were in ectodermal cells. Methionine metabolism and genes of the main signaling pathways involved in gastrulation and body patterning were affected by ethanol in all germ layers. Many of the altered genes, including BMP4, FGF8, SIX3 and LHX2, have previously been associated with PAE and phenotypes of FASD, like defects in heart and corpus callosum development as well as holoprosencephaly. Our findings support the early origin of alcohol-induced developmental disorders and strengthen the role of methionine cycle in the etiology of FASD.

Indexed as

DNA MethylationEthanolGastrulationHuman Embryonic Stem CellsMetabolomeTranscriptomeCell DifferentiationGene Expression ProfilingGene Expression Regulation, DevelopmentalHumansMethionineEthanolMethionineDNA methylationEctodermEmbryonic developmentEndodermFASDGastrulationMesodermPrenatal alcohol exposure

Identifiers

PMID40401629
PMCPMC12208196

What Socratic holds

Textmetadata
LicenceCC BY
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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.