Dynamics of DNA methylomes underlie oyster development
International audience DNA methylation is a critical epigenetic regulator of development in mammals and social insects, but its significance in development outside these groups is not understood. Here we investigated the genome-wide dynamics of DNA methylation in a mollusc model, the oyster Crassost...
Published in: | PLOS Genetics |
---|---|
Main Authors: | , , , , , , , |
Other Authors: | , , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
Published: |
HAL CCSD
2017
|
Subjects: | |
Online Access: | https://hal.archives-ouvertes.fr/hal-02153935 https://hal.archives-ouvertes.fr/hal-02153935/document https://hal.archives-ouvertes.fr/hal-02153935/file/journal.pgen.1006807.pdf https://doi.org/10.1371/journal.pgen.1006807 |
id |
ftunivnantes:oai:HAL:hal-02153935v1 |
---|---|
record_format |
openpolar |
spelling |
ftunivnantes:oai:HAL:hal-02153935v1 2023-05-15T15:58:40+02:00 Dynamics of DNA methylomes underlie oyster development Rivière, Guillaume He, yan Tecchio, Samuele Crowell, Elizabeth Gras, Michael Sourdaine, Pascal Guo, Ximing Favrel, Pascal Biologie des Organismes et Ecosystèmes Aquatiques (BOREA) Université de Caen Normandie (UNICAEN) Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA) Ocean University of China (OUC) Rutgers University Newark Rutgers University System (Rutgers) 2017-06-08 https://hal.archives-ouvertes.fr/hal-02153935 https://hal.archives-ouvertes.fr/hal-02153935/document https://hal.archives-ouvertes.fr/hal-02153935/file/journal.pgen.1006807.pdf https://doi.org/10.1371/journal.pgen.1006807 en eng HAL CCSD Public Library of Science info:eu-repo/semantics/altIdentifier/doi/10.1371/journal.pgen.1006807 hal-02153935 https://hal.archives-ouvertes.fr/hal-02153935 https://hal.archives-ouvertes.fr/hal-02153935/document https://hal.archives-ouvertes.fr/hal-02153935/file/journal.pgen.1006807.pdf doi:10.1371/journal.pgen.1006807 http://creativecommons.org/licenses/by/ info:eu-repo/semantics/OpenAccess ISSN: 1553-7390 EISSN: 1553-7404 PLoS Genetics https://hal.archives-ouvertes.fr/hal-02153935 PLoS Genetics, Public Library of Science, 2017, 13 (6), pp.e1006807. ⟨10.1371/journal.pgen.1006807⟩ [SDV]Life Sciences [q-bio] info:eu-repo/semantics/article Journal articles 2017 ftunivnantes https://doi.org/10.1371/journal.pgen.1006807 2022-07-13T00:16:54Z International audience DNA methylation is a critical epigenetic regulator of development in mammals and social insects, but its significance in development outside these groups is not understood. Here we investigated the genome-wide dynamics of DNA methylation in a mollusc model, the oyster Crassostrea gigas, from the egg to the completion of organogenesis. Large-scale methyla-tion maps reveal that the oyster genome displays a succession of methylated and non meth-ylated regions, which persist throughout development. Differentially methylated regions (DMRs) are strongly regulated during cleavage and metamorphosis. The distribution and levels of methylated DNA within genomic features (exons, introns, promoters, repeats and transposons) show different developmental lansdscapes marked by a strong increase in the methylation of exons against introns after metamorphosis. Kinetics of methylation in gene-bodies correlate to their transcription regulation and to distinct functional gene clusters, and DMRs at cleavage and metamorphosis bear the genes functionally related to these steps, respectively. This study shows that DNA methylome dynamics underlie development through transcription regulation in the oyster, a lophotrochozoan species. To our knowledge, this is the first demonstration of such epigenetic regulation outside vertebrates and ecdy-sozoan models, bringing new insights into the evolution and the epigenetic regulation of developmental processes. Article in Journal/Newspaper Crassostrea gigas Université de Nantes: HAL-UNIV-NANTES PLOS Genetics 13 6 e1006807 |
institution |
Open Polar |
collection |
Université de Nantes: HAL-UNIV-NANTES |
op_collection_id |
ftunivnantes |
language |
English |
topic |
[SDV]Life Sciences [q-bio] |
spellingShingle |
[SDV]Life Sciences [q-bio] Rivière, Guillaume He, yan Tecchio, Samuele Crowell, Elizabeth Gras, Michael Sourdaine, Pascal Guo, Ximing Favrel, Pascal Dynamics of DNA methylomes underlie oyster development |
topic_facet |
[SDV]Life Sciences [q-bio] |
description |
International audience DNA methylation is a critical epigenetic regulator of development in mammals and social insects, but its significance in development outside these groups is not understood. Here we investigated the genome-wide dynamics of DNA methylation in a mollusc model, the oyster Crassostrea gigas, from the egg to the completion of organogenesis. Large-scale methyla-tion maps reveal that the oyster genome displays a succession of methylated and non meth-ylated regions, which persist throughout development. Differentially methylated regions (DMRs) are strongly regulated during cleavage and metamorphosis. The distribution and levels of methylated DNA within genomic features (exons, introns, promoters, repeats and transposons) show different developmental lansdscapes marked by a strong increase in the methylation of exons against introns after metamorphosis. Kinetics of methylation in gene-bodies correlate to their transcription regulation and to distinct functional gene clusters, and DMRs at cleavage and metamorphosis bear the genes functionally related to these steps, respectively. This study shows that DNA methylome dynamics underlie development through transcription regulation in the oyster, a lophotrochozoan species. To our knowledge, this is the first demonstration of such epigenetic regulation outside vertebrates and ecdy-sozoan models, bringing new insights into the evolution and the epigenetic regulation of developmental processes. |
author2 |
Biologie des Organismes et Ecosystèmes Aquatiques (BOREA) Université de Caen Normandie (UNICAEN) Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA) Ocean University of China (OUC) Rutgers University Newark Rutgers University System (Rutgers) |
format |
Article in Journal/Newspaper |
author |
Rivière, Guillaume He, yan Tecchio, Samuele Crowell, Elizabeth Gras, Michael Sourdaine, Pascal Guo, Ximing Favrel, Pascal |
author_facet |
Rivière, Guillaume He, yan Tecchio, Samuele Crowell, Elizabeth Gras, Michael Sourdaine, Pascal Guo, Ximing Favrel, Pascal |
author_sort |
Rivière, Guillaume |
title |
Dynamics of DNA methylomes underlie oyster development |
title_short |
Dynamics of DNA methylomes underlie oyster development |
title_full |
Dynamics of DNA methylomes underlie oyster development |
title_fullStr |
Dynamics of DNA methylomes underlie oyster development |
title_full_unstemmed |
Dynamics of DNA methylomes underlie oyster development |
title_sort |
dynamics of dna methylomes underlie oyster development |
publisher |
HAL CCSD |
publishDate |
2017 |
url |
https://hal.archives-ouvertes.fr/hal-02153935 https://hal.archives-ouvertes.fr/hal-02153935/document https://hal.archives-ouvertes.fr/hal-02153935/file/journal.pgen.1006807.pdf https://doi.org/10.1371/journal.pgen.1006807 |
genre |
Crassostrea gigas |
genre_facet |
Crassostrea gigas |
op_source |
ISSN: 1553-7390 EISSN: 1553-7404 PLoS Genetics https://hal.archives-ouvertes.fr/hal-02153935 PLoS Genetics, Public Library of Science, 2017, 13 (6), pp.e1006807. ⟨10.1371/journal.pgen.1006807⟩ |
op_relation |
info:eu-repo/semantics/altIdentifier/doi/10.1371/journal.pgen.1006807 hal-02153935 https://hal.archives-ouvertes.fr/hal-02153935 https://hal.archives-ouvertes.fr/hal-02153935/document https://hal.archives-ouvertes.fr/hal-02153935/file/journal.pgen.1006807.pdf doi:10.1371/journal.pgen.1006807 |
op_rights |
http://creativecommons.org/licenses/by/ info:eu-repo/semantics/OpenAccess |
op_doi |
https://doi.org/10.1371/journal.pgen.1006807 |
container_title |
PLOS Genetics |
container_volume |
13 |
container_issue |
6 |
container_start_page |
e1006807 |
_version_ |
1766394427899641856 |