Rewiring of SINE-MIR enhancer topology and Esrrb modulation in expanded and naive pluripotency.

ABSTRACT:

Background

The interplay between 3D genomic structure and transposable elements (TE) in regulating cell state-specific gene expression program is largely unknown. Here, we explore the utilization of TE-derived enhancers in naïve and expanded pluripotent states by integrative analysis of genome-wide Hi-C-defined enhancer interactions, H3K27ac HiChIP profiling and CRISPR-guided TE proteomics landscape.

Results

We find that short interspersed nuclear elements (SINEs) are the more involved TEs in the active chromatin and 3D genome architecture. In particular, mammalian-wide interspersed repeat (MIR), a SINE family member, is highly associated with naïve-specific genomic interactions compared to the expanded state. Primarily, in the naïve pluripotent state, MIR enhancer is co-opt

SUBMITTER: Cipta NO 

PROVIDER: S-EPMC12036290 | biostudies-literature | 2025 Apr

REPOSITORIES: biostudies-literature