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Conservation and divergence of canonical and non-canonical imprinting in murids.
Richard Albert, Julien; Kobayashi, Toshihiro; Inoue, Azusa; Monteagudo-Sánchez, Ana; Kumamoto, Soichiro; Takashima, Tomoya; Miura, Asuka; Oikawa, Mami; Miura, Fumihito; Takada, Shuji; Hirabayashi, Masumi; Korthauer, Keegan; Kurimoto, Kazuki; Greenberg, Maxim V C; Lorincz, Matthew; Kobayashi, Hisato.
Afiliação
  • Richard Albert J; Université Paris Cité, CNRS, Institut Jacques Monod, Paris, France. jrichardalbert@gmail.com.
  • Kobayashi T; Division of Mammalian Embryology, Center for Stem Cell Biology and Regenerative Medicine, The Institute of Medical Science, The University of Tokyo, Tokyo, Japan.
  • Inoue A; YCI Laboratory for Metabolic Epigenetics, RIKEN Center for Integrative Medical Sciences, Yokohama, Japan.
  • Monteagudo-Sánchez A; Université Paris Cité, CNRS, Institut Jacques Monod, Paris, France.
  • Kumamoto S; NODAI Genome Research Center, Tokyo University of Agriculture, Tokyo, Japan.
  • Takashima T; Department of Embryology, Nara Medical University, Nara, Japan.
  • Miura A; NODAI Genome Research Center, Tokyo University of Agriculture, Tokyo, Japan.
  • Oikawa M; Division of Mammalian Embryology, Center for Stem Cell Biology and Regenerative Medicine, The Institute of Medical Science, The University of Tokyo, Tokyo, Japan.
  • Miura F; Department of Biochemistry, Kyushu University Graduate School of Medical Sciences, Fukuoka, Japan.
  • Takada S; Department of Systems BioMedicine, National Research Institute for Child Health and Development, Tokyo, Japan.
  • Hirabayashi M; Center for Genetic Analysis of Behavior, National Institute for Physiological Sciences, Okazaki, Japan.
  • Korthauer K; Department of Statistics, University of British Columbia, Vancouver, Canada.
  • Kurimoto K; BC Children's Hospital Research Institute, Vancouver, BC, Canada.
  • Greenberg MVC; Department of Embryology, Nara Medical University, Nara, Japan.
  • Lorincz M; Université Paris Cité, CNRS, Institut Jacques Monod, Paris, France.
  • Kobayashi H; Department of Medical Genetics, University of British Columbia, Vancouver, Canada.
Genome Biol ; 24(1): 48, 2023 03 14.
Article em En | MEDLINE | ID: mdl-36918927
ABSTRACT

BACKGROUND:

Genomic imprinting affects gene expression in a parent-of-origin manner and has a profound impact on complex traits including growth and behavior. While the rat is widely used to model human pathophysiology, few imprinted genes have been identified in this murid. To systematically identify imprinted genes and genomic imprints in the rat, we use low input methods for genome-wide analyses of gene expression and DNA methylation to profile embryonic and extraembryonic tissues at allele-specific resolution.

RESULTS:

We identify 14 and 26 imprinted genes in these tissues, respectively, with 10 of these genes imprinted in both tissues. Comparative analyses with mouse reveal that orthologous imprinted gene expression and associated canonical DNA methylation imprints are conserved in the embryo proper of the Muridae family. However, only 3 paternally expressed imprinted genes are conserved in the extraembryonic tissue of murids, all of which are associated with non-canonical H3K27me3 imprints. The discovery of 8 novel non-canonical imprinted genes unique to the rat is consistent with more rapid evolution of extraembryonic imprinting. Meta-analysis of novel imprinted genes reveals multiple mechanisms by which species-specific imprinted expression may be established, including H3K27me3 deposition in the oocyte, the appearance of ZFP57 binding motifs, and the insertion of endogenous retroviral promoters.

CONCLUSIONS:

In summary, we provide an expanded list of imprinted loci in the rat, reveal the extent of conservation of imprinted gene expression, and identify potential mechanisms responsible for the evolution of species-specific imprinting.
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Texto completo: 1 Base de dados: MEDLINE Assunto principal: Histonas / Muridae Tipo de estudo: Systematic_reviews Limite: Animals / Humans Idioma: En Ano de publicação: 2023 Tipo de documento: Article

Texto completo: 1 Base de dados: MEDLINE Assunto principal: Histonas / Muridae Tipo de estudo: Systematic_reviews Limite: Animals / Humans Idioma: En Ano de publicação: 2023 Tipo de documento: Article