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bioRxiv · 10.1101/2023.06.15.545138

Expanding the list of sequence-agnostic enzymes for chromatin conformation capture assays with S1 nuclease

Gridina, M.·Popov, A.·Shadskiy, A.·Torgunakov, N.·Kechin, A.·Khrapov, E.·Ryzhkova, O.·Filipenko, M.·Fishman, V.
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Abstract

This study presents a novel approach for mapping global chromatin interactions using S1 nuclease, a sequence-agnostic enzyme. We develop and outline a protocol that leverages S1 nucleases ability to effectively introduce breaks into both open and closed chromatin regions, allowing for comprehensive profiling of chromatin properties. Our S1 Hi-C method enables the preparation of high-quality Hi-C libraries, marking a significant advancement over previously established DNase I Hi-C protocols. Moreover, S1 nucleases capability to fragment chromatin to mono-nucleosomes suggests the potential for mapping the three-dimensional organization of the genome at high resolution. This methodology holds promise for an improved understanding of chromatin state-dependent activities and may facilitate the development of new genomic methods.

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Gridina, M., Popov, A., Shadskiy, A., Torgunakov, N., Kechin, A., Khrapov, E., Ryzhkova, O., Filipenko, M., Fishman, V.. 2023-06-15. Expanding the list of sequence-agnostic enzymes for chromatin conformation capture assays with S1 nuclease. https://doi.org/10.1101/2023.06.15.545138

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