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3D genome landscaping of in vitro totipotent cellular models [RNA-seq]

GSE299617 Mus musculus Expression profiling by high throughput sequencing 6 samples Submitted 2025/12/30 Platform GPL24247
Summary
Totipotent embryos lack higher-order genome architecture. In this study, we profile the 3D genome architecture of two putative totipotent cellular models, ciTotiSCs and TBLCs. Notably, both ciTotiSCs and TBLCs retain TADs and structurally resemble ICM/ESCs more closely than totipotent embryos. While TADs and compartmentalization are positionally conserved, they weaken upon acquisition of totipotency. Integrative analysis of epigenetic and Hi-C data further reveal that pluripotency genes undergo coordinated epigenetic landscape remodeling and contact domain reorganization, driving pluripotency suppression. Conversely, totipotency gene activation appears to operate through distinct, yet undefined mechanisms. This study establishes the first functional link between 3D genome folding and totipotency-pluripotency transitions while proposing a revised framework for evaluating in vitro totipotency models.
Published in
Topologically associating domains define the 3D genome architecture of mouse totipotent-like stem cells
Fu Y, Ma W, Han J et al. · The Journal of biological chemistry 2026 · PMID 41654129 · doi:10.1016/j.jbc.2026.111236
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Also filed as BioProject PRJNA1275720 and SRA study SRP591941. Searching any of these in the dataset finder brings you back here.

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