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Spatial and Temporal Regulation of Parent-of-Origin Allelic Expression in the Endosperm

View ORCID ProfileYuri S. van Ekelenburg, View ORCID ProfileKarina S. Hornslien, View ORCID ProfileTom Van Hautegem, View ORCID ProfileMatyáš Fendrych, View ORCID ProfileGert Van Isterdael, View ORCID ProfileKatrine N. Bjerkan, View ORCID ProfileJason R. Miller, View ORCID ProfileMoritz K. Nowack, View ORCID ProfilePaul E. Grini
doi: https://doi.org/10.1101/2022.01.29.478178
Yuri S. van Ekelenburg
aSection for Genetics and Evolutionary Biology, Department of Biosciences, University of Oslo, 0316 Oslo, Norway
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Karina S. Hornslien
aSection for Genetics and Evolutionary Biology, Department of Biosciences, University of Oslo, 0316 Oslo, Norway
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Tom Van Hautegem
bDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052, Ghent, Belgium
cVIB Center for Plant Systems Biology, 9052, Ghent, Belgium
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Matyáš Fendrych
bDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052, Ghent, Belgium
cVIB Center for Plant Systems Biology, 9052, Ghent, Belgium
dDepartment of Experimental Plant Biology, Charles University, Prague, Czech Republic
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Gert Van Isterdael
eVIB Flow Core, VIB Center for Inflammation Research, Ghent, Belgium
fDepartment of Biomedical Molecular Biology, Ghent University, Ghent, Belgium
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Katrine N. Bjerkan
aSection for Genetics and Evolutionary Biology, Department of Biosciences, University of Oslo, 0316 Oslo, Norway
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Jason R. Miller
gCollege of STEM, Shepherd University, Shepherdstown, West Virginia 25443-5000
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Moritz K. Nowack
bDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052, Ghent, Belgium
cVIB Center for Plant Systems Biology, 9052, Ghent, Belgium
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Paul E. Grini
aSection for Genetics and Evolutionary Biology, Department of Biosciences, University of Oslo, 0316 Oslo, Norway
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  • ORCID record for Paul E. Grini
  • For correspondence: paul.grini@ibv.uio.no
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Abstract

Genomic imprinting promotes differential expression of parental alleles in the endosperm of flowering plants, and is regulated by epigenetic modification such as DNA methylation and histone tail modifications in chromatin. After fertilization, the endosperm develops through a syncytial stage before it cellularizes and becomes a nutrient source for the growing embryo. Both in early and late endosperm development regional compartmentalization has been shown, and different transcriptional domains suggest divergent spatial and temporal regional functions. The analysis of the role of parent-of-origin allelic expression in the endosperm as a whole and also investigation of domain specific functions has been hampered by the availability of the tissue for high-throughput transcriptome analyses and contamination from surrounding tissue. Here we have used Fluorescence-Activated Nuclear Sorting (FANS) of nuclear targeted eGFP fluorescent genetic markers to capture parental specific allelic expression from different developmental stages and specific endosperm domains. This RNASeq approach allows us to successfully identify differential genomic imprinting with temporal and spatial resolution. In a systematic approach we report temporal regulation of imprinted genes in the endosperm as well as region specific imprinting in endosperm domains. Our data identifies loci that are spatially differentially imprinted in one domain of the endosperm while biparentally expressed in other domains. This suggests that regulation of genomic imprinting is dynamic and challenges the canonical mechanisms for genomic imprinting.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • https://github.com/PaulGrini/vanEkelenburg

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Posted January 30, 2022.
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Spatial and Temporal Regulation of Parent-of-Origin Allelic Expression in the Endosperm
Yuri S. van Ekelenburg, Karina S. Hornslien, Tom Van Hautegem, Matyáš Fendrych, Gert Van Isterdael, Katrine N. Bjerkan, Jason R. Miller, Moritz K. Nowack, Paul E. Grini
bioRxiv 2022.01.29.478178; doi: https://doi.org/10.1101/2022.01.29.478178
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Spatial and Temporal Regulation of Parent-of-Origin Allelic Expression in the Endosperm
Yuri S. van Ekelenburg, Karina S. Hornslien, Tom Van Hautegem, Matyáš Fendrych, Gert Van Isterdael, Katrine N. Bjerkan, Jason R. Miller, Moritz K. Nowack, Paul E. Grini
bioRxiv 2022.01.29.478178; doi: https://doi.org/10.1101/2022.01.29.478178

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