ArticleGenome biology2020
The asynchronous establishment of chromatin 3D architecture between in vitro fertilized and uniparental preimplantation pig embryos.
Article in Genome biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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21 citing papers in PubMed, 47 citations in OpenAlex.
- Review
- Integrating Hi-C data and RNA-seq data to reveal the 3D genome in sheep.BMC genomics · 2025Article
- Epigenome dynamics in early mammalian embryogenesis.Nature reviews. Genetics · 2025Review
- The hierarchical folding dynamics of topologically associating domains during early embryo development.BMC biology · 2025Article
- Nucleosome organization of mouse embryos during pre-implantation development.Scientific reports · 2025Article
- Super RNA Pol II domains enhance minor ZGA through 3D interaction to ensure the integrity of major transcriptional waves in late-ZGA mammals.Cell genomics · 2025Article
- Sperm-Derived CircRNA-1572 Regulates Embryogenesis and Zygotic Genome Activation by Targeting CCNB2 via Bta-miR-2478-L-2.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Hi-C Protocol for Studying Chromatin Spatial Organization in Early Zebrafish Development.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Kick-starting the zygotic genome: licensors, specifiers, and beyond.EMBO reports · 2024Review
- A comprehensive benchmarking with interpretation and operational guidance for the hierarchy of topologically associating domains.Nature communications · 2024Article
- Exploring the dynamic three-dimensional chromatin architecture and transcriptional landscape in goose liver tissues underlying metabolic adaptations induced by a high-fat diet.Journal of animal science and biotechnology · 2024Article
- HiC4D: forecasting spatiotemporal Hi-C data with residual ConvLSTM.Briefings in bioinformatics · 2023Article
- Dynamic chromatin architectures provide insights into the genetics of cattle myogenesis.Journal of animal science and biotechnology · 2023Article
- Dynamics of nuclear architecture during early embryonic development and lessons from liveimaging.Developmental cell · 2023Review
- Detailed molecular and epigenetic characterization of the pig IPEC-J2 and chicken SL-29 cell lines.iScience · 2023Article
- A Tremendous Reorganization Journey for the 3D Chromatin Structure from Gametes to Embryos.Genes · 2022Review
- Repression and 3D-restructuring resolves regulatory conflicts in evolutionarily rearranged genomes.Cell · 2022Article
- Epigenetic Reprogramming in Early Animal Development.Cold Spring Harbor perspectives in biology · 2022Review
- Loss of Monoallelic Expression ofFrontiers in genetics · 2022Article
- Dysregulated Gene Expression of Imprinted and X-Linked Genes: A Link to Poor Development of Bovine Haploid Androgenetic Embryos.Frontiers in cell and developmental biology · 2021Article
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Authors and funding
16 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundPigs are important animals for agricultural and biomedical research, and improvement is needed for use of the assisted reproductive technologies. Determining underlying mechanisms of epigenetic reprogramming in the early stage of preimplantation embryos derived from in vitro fertilization (IVF), parthenogenesis, and androgenesis will not only contribute to assisted reproductive technologies of pigs but also will shed light into early human development. However, the reprogramming of three-dimensional architecture of chromatin in this process in pigs is poorly understood.
resultsWe generate three-dimensional chromatin profiles for pig somatic cells, IVF, parthenogenesis, and androgenesis preimplantation embryos. We find that the chromosomes in the pig preimplantation embryos are enriched for superdomains, which are more rare in mice. However, p(s) curves, compartments, and topologically associated domains (TADs) are largely conserved in somatic cells and are gradually established during preimplantation embryogenesis in both mammals. In the uniparental pig embryos, the establishment of chromatin architecture is highly asynchronized at all levels from IVF embryos, and a remarkably strong decompartmentalization is observed during zygotic genome activation (ZGA). Finally, chromosomes originating from oocytes always establish TADs faster than chromosomes originating from sperm, both before and during ZGA.
conclusionsOur data highlight a potential unique 3D chromatin pattern of enriched superdomains in pig preimplantation embryos, an unusual decompartmentalization process during ZGA in the uniparental embryos, and an asynchronized TAD reprogramming between maternal and paternal genomes, implying a severe dysregulation of ZGA in the uniparental embryos in pigs.
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