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Multi-omics approach reveals dysregulated genes during hESCs neuronal differentiation exposure to paracetamol

Mari Spildrejorde, View ORCID ProfileAthina Samara, View ORCID ProfileAnkush Sharma, Magnus Leithaug, Martin Falck, Stefania Modafferi, View ORCID ProfileArvind Y. M. Sundaram, View ORCID ProfileGanesh Acharya, View ORCID ProfileHedvig Nordeng, View ORCID ProfileRagnhild Eskeland, View ORCID ProfileKristina Gervin, View ORCID ProfileRobert Lyle
doi: https://doi.org/10.1101/2022.12.08.519620
Mari Spildrejorde
1PharmaTox Strategic Research Initiative, Faculty of Mathematics and Natural Sciences, University of Oslo, Norway
2Department of Medical Genetics, Oslo University Hospital and University of Oslo, Norway
3Institute of Clinical Medicine, Faculty of Medicine, University of Oslo, Oslo, Norway
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Athina Samara
4Division of Clinical Paediatrics, Department of Women’s and Children’s Health, Karolinska Institutet, Sweden
5Astrid Lindgren Children′s Hospital, Karolinska University Hospital, Stockholm, Sweden
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  • For correspondence: athina.samara@ki.se ragnhild.eskeland@medisin.uio.no
Ankush Sharma
6Department of Informatics, University of Oslo, Norway
7Department of Molecular Medicine, Institute of Basic Medical Sciences, Faculty of Medicine, University of Oslo, Oslo, Norway
8Department of Biosciences, University of Oslo, Norway
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Magnus Leithaug
1PharmaTox Strategic Research Initiative, Faculty of Mathematics and Natural Sciences, University of Oslo, Norway
2Department of Medical Genetics, Oslo University Hospital and University of Oslo, Norway
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Martin Falck
1PharmaTox Strategic Research Initiative, Faculty of Mathematics and Natural Sciences, University of Oslo, Norway
8Department of Biosciences, University of Oslo, Norway
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Stefania Modafferi
2Department of Medical Genetics, Oslo University Hospital and University of Oslo, Norway
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Arvind Y. M. Sundaram
2Department of Medical Genetics, Oslo University Hospital and University of Oslo, Norway
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Ganesh Acharya
9Division of Obstetrics and Gynecology, Department of Clinical Science, Intervention and Technology (CLINTEC), Karolinska Institutet, Alfred Nobels Allé 8, SE-14152, Stockholm, Sweden
10Center for Fetal Medicine, Karolinska University Hospital, SE-14186 Stockholm, Sweden
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Hedvig Nordeng
1PharmaTox Strategic Research Initiative, Faculty of Mathematics and Natural Sciences, University of Oslo, Norway
11Pharmacoepidemiology and Drug Safety Research Group, Department of Pharmacy, University of Oslo, Norway
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Ragnhild Eskeland
1PharmaTox Strategic Research Initiative, Faculty of Mathematics and Natural Sciences, University of Oslo, Norway
7Department of Molecular Medicine, Institute of Basic Medical Sciences, Faculty of Medicine, University of Oslo, Oslo, Norway
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  • For correspondence: athina.samara@ki.se ragnhild.eskeland@medisin.uio.no
Kristina Gervin
1PharmaTox Strategic Research Initiative, Faculty of Mathematics and Natural Sciences, University of Oslo, Norway
11Pharmacoepidemiology and Drug Safety Research Group, Department of Pharmacy, University of Oslo, Norway
12Division of Clinical Neuroscience, Department of Research and Innovation, Oslo University Hospital, Oslo, Norway
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Robert Lyle
1PharmaTox Strategic Research Initiative, Faculty of Mathematics and Natural Sciences, University of Oslo, Norway
2Department of Medical Genetics, Oslo University Hospital and University of Oslo, Norway
13Centre for Fertility and Health, Norwegian Institute of Public Health, Oslo, Norway
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Summary

Prenatal paracetamol exposure has been associated with neurodevelopmental outcomes in childhood. Pharmacoepigenetic studies show differences in cord blood DNA methylation between paracetamol exposed and unexposed neonates. However, causal implications and impact of long-term prenatal long-term paracetamol exposure on brain development remain unclear. Using a multi-omics approach, we investigated the effects of paracetamol on a model of early human brain development. We exposed human embryonic stem cells undergoing in vitro neuronal differentiation to daily media changes with paracetamol concentrations corresponding to maternal therapeutic doses. Single-cell RNA-seq and ATAC-seq integration identified paracetamol-induced chromatin-opening changes linked to gene expression. Differentially methylated and/or expressed genes were involved in signalling, neurotransmission, and cell fate-determination trajectories. Some genes involved in neuronal injury and development-specific pathways, such as KCNE3, overlapped with differentially methylated genes previously identified in cord blood associated with prenatal paracetamol exposure. Our data suggest that paracetamol may play a causal role in impaired neurodevelopment.

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Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • ↵14 Lead contact

  • Manuscript and Supplemental files updated.

  • https://cancell.medisin.uio.no/scrna/hescneuroparacet/

  • https://cancell.medisin.uio.no/scatac/hescneurodiffparacet/

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Multi-omics approach reveals dysregulated genes during hESCs neuronal differentiation exposure to paracetamol
Mari Spildrejorde, Athina Samara, Ankush Sharma, Magnus Leithaug, Martin Falck, Stefania Modafferi, Arvind Y. M. Sundaram, Ganesh Acharya, Hedvig Nordeng, Ragnhild Eskeland, Kristina Gervin, Robert Lyle
bioRxiv 2022.12.08.519620; doi: https://doi.org/10.1101/2022.12.08.519620
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Multi-omics approach reveals dysregulated genes during hESCs neuronal differentiation exposure to paracetamol
Mari Spildrejorde, Athina Samara, Ankush Sharma, Magnus Leithaug, Martin Falck, Stefania Modafferi, Arvind Y. M. Sundaram, Ganesh Acharya, Hedvig Nordeng, Ragnhild Eskeland, Kristina Gervin, Robert Lyle
bioRxiv 2022.12.08.519620; doi: https://doi.org/10.1101/2022.12.08.519620

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