Characterization of transcriptional activity during ZGA in mammalian SCNT embryo

Developmental arrest of somatic cell nuclear transfer (SCNT) embryos first occurs at zygotic/embryonic genome activation (ZGA/EGA), which is critical for preimplantation development. However, study on transcriptome of SCNT embryos during ZGA/EGA is limited. In the present study, we performed RNA seq...

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Bibliographic Details
Published in:Biology of reproduction 2021-10, Vol.105 (4), p.905-917
Main Authors: Deng, Mingtian, Chen, Baobao, Yang, Yingnan, Wan, Yongjie, Liu, Zifei, Fu, Jun, Wang, Feng
Format: Article
Language:English
Subjects:
Animals
Cluster analysis
Embryo
Embryo, Mammalian - metabolism
Embryogenesis
Embryonic development
Embryonic Development - genetics
Embryos
Genes
Genetic transcription
Genomes
Genomics
Goats
Goats - embryology
histone methylation
Histones
In vitro fertilization
m6A
Methylation
Methyltransferases
Nuclear transfer
reprogramming
RESEARCH ARTICLE
Ribonucleic acid
RNA
RNA sequencing
Somatic cell nuclear transfer
Species
Stochasticity
Transcription
Transcriptomes
Zygote - metabolism
zygotic genome activation
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Summary:Developmental arrest of somatic cell nuclear transfer (SCNT) embryos first occurs at zygotic/embryonic genome activation (ZGA/EGA), which is critical for preimplantation development. However, study on transcriptome of SCNT embryos during ZGA/EGA is limited. In the present study, we performed RNA sequencing (RNA-seq) of the eight-cell SCNT embryos in goat and provide cross-species analysis of transcriptional activity of SCNT embryos during ZGA/EGA in mice, human, bovine, and goat. RNA-seq data revealed 3966 differentially expressed genes (DEGs) failed to be reprogrammed or activated during EGA of SCNT embryos in goat. Series test of cluster analysis showed four clusters of DEGs and similar changes of the clusters in the four species. Specifically, genes in cluster 3 were somehow upregulated compared with the donor cells and the in vitro fertilization embryo. Moreover, the histone methylation key players and N6-methyladenosine modifiers (SUV39H1, SETDB1, SETD2, KDM5B, IGF2BP1, and YTHDF2) were differentially expressed in SCNT embryos of all species. Finally, we identified three modules correlated with the development of SCNT embryos in mice and screened 288 genes (such as BTG4, WEE1, KLF3, and USP21) that are likely critical for SCNT reprogramming using weighted gene correlation network analysis. Our data will broaden the current understanding of transcriptome activity during stochastic reprogramming events and provide an excellent source for future studies. Summary sentence Characterization of transcriptional activity and identify critical genes in mammalian SCNT embryo. Graphical Abstract
ISSN:0006-3363
1529-7268
DOI:10.1093/biolre/ioab127