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Spatial profiling of chromatin accessibility in mouse and human tissues
Yanxiang Deng1,2, Marek Bartosovic3, Sai Ma4
1Department of Biomedical Engineering, Yale University, New Haven, CT, USA.
Nature
|August 17, 2022
Summary
Spatial-ATAC-seq maps chromatin accessibility in tissues, revealing epigenetic landscapes crucial for understanding cell development and disease. This new method provides genome-scale insights into tissue organization and cell states.
Area of Science:
- Epigenetics
- Spatial Biology
- Genomics
Background:
- Cellular function relies on the local tissue environment, necessitating advanced spatial mapping techniques.
- While spatial transcriptomics maps gene expression, spatial epigenetic profiling at the cellular and genome scale is lacking.
Purpose of the Study:
- To introduce a novel method for spatially resolved chromatin accessibility profiling of tissue sections.
- To enable genome-scale epigenetic mapping within the tissue context.
Main Methods:
- Development of spatial-ATAC-seq by combining in situ Tn5 transposition chemistry and microfluidic deterministic barcoding.
- Application of next-generation sequencing for profiling tissue sections.
Main Results:
- Delineation of tissue-region-specific epigenetic landscapes in mouse embryos, identifying gene regulators in central nervous system development.
- Mapping of accessible genomes in mouse and human brains, revealing intricate regional arealization.
- Resolution of spatially distinct immune cell organization in tonsil tissue.
Conclusions:
- Spatial-ATAC-seq advances spatial biology by providing spatially resolved chromatin accessibility profiles.
- This technology enhances understanding of cell identity, state, and fate decisions linked to epigenetic underpinnings in development and disease.
