GEO series

RNA-seq and Cut & Tag analyses of mouse 2-cell embryos in which lamin B1 dissociation from the nuclear envelope is inhibited

GSE222656 Mus musculus Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing 40 samples Submitted 2026/08/08 Platform GPL28457Platform GPL30172

Summary

We have found that lamin B1 is dissociated from the nuclear envelope transiently at the 2-cell stage during mouse embryonic development. This lamin B1 dissociation is mediated by autophagy and can be inhibited by interfering with lamin B1’s binding to LC3, a factor responsible for early autophagosome formation. In order to block interaction between lamin B1 and LC3, we injected mRNA harboring the LC3-binding domain of lamin B1 to mouse embryos and examined transcriptomes of the injected embryos by RNA sequencing (RNA-seq) analysis. In addition, embryos expressed with full-length lamin B1 mRNA harboring two different types of mutations (flLB1(F454A/L457A) and flLB1(5A)) were analyzed by RNA-seq, together with non-injection control (Non2). Another injection control (flLB1(F454A/L457A)ΔC) was also performed, together with a non-injection control (Non3). Furthermore, the effect of nuclear stiffening was examined by expressing the molecular tether-anchor system (tWT), together with a mutant carrying LaG165A (tMut) and a non-injection control (Non4). Chromatin states of such embryos were analyzed by Cut & Tag using anti-H3K4me3 antibody.

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Direct links to NCBI, no account and no request form: the whole study as GSE222656_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 40 samples. Raw sequencing reads are also available from ENA.

Whole study · RAW.tar ↓ Series matrix ↓ All supplementary files ↗ Raw reads on ENA ↗

Also filed as BioProject PRJNA922971 and SRA study SRP417039. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

12 conditions, mostly in triplicate

LC3 ×4 Non ×4 flLB1(F454A/L457A) ×3 flLB1(5A) ×3 Non2 ×3 tWT ×3 tMut ×3 Non4 ×3 +8 more

Supports a between-group comparison across 36 samples.

12 replicated groups read from 40 sample titles; they account for 36 of them. Check it against the sample list below before relying on it.

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