Embryo spatial 3D genomics
Embryo spatial 3D genomics
Abstract The 3D architecture of the genome is crucial for controlling gene expression and organ development. Here, we introduce a spatial 3D genomics approach for assessing chromatin conformation in-situ in tissue sections, by integrating microfluidic deterministic barcoding and SPRITE procedures. This method was applied to mouse embryo sections, revealing a hierarchical model of chromatin interactions within and between compartments in various organs. The intra-compartment interactions vary among organs to orchestrate gene expressions, while the inter-compartment interactions remain identical in the most organs. Beyond this, the liver exhibits overwhelmingly packed chromatin with enhanced adjacent-compartment interactions, possibly related to its physiology. These findings highlight the importance of tissue-spatial information in understanding embryonic chromatin organization. The approach presents a powerful tool for investigating these processes in tissues with high heterogeneity. One Sentence SummaryA spatial 3D genomics approach was developed that accesses hierarchical chromatin conformation in-situ in tissue sections.
Gou Bo、Shu Muya、Li Xiang、Lu Falong、Xu Yuetong、Ma Yuang
State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology (IGDB), Chinese Academy of Sciences||University of Chinese Academy of SciencesState Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology (IGDB), Chinese Academy of SciencesState Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology (IGDB), Chinese Academy of Sciences||University of Chinese Academy of SciencesState Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology (IGDB), Chinese Academy of Sciences||University of Chinese Academy of SciencesState Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology (IGDB), Chinese Academy of SciencesState Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology (IGDB), Chinese Academy of Sciences||University of Chinese Academy of Sciences
生物科学研究方法、生物科学研究技术遗传学分子生物学
Gou Bo,Shu Muya,Li Xiang,Lu Falong,Xu Yuetong,Ma Yuang.Embryo spatial 3D genomics[EB/OL].(2025-03-28)[2025-08-02].https://www.biorxiv.org/content/10.1101/2024.05.07.592900.点此复制
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