Chromatin accessibility landscape of mouse early embryos revealed by single-cell NanoATAC-seq2

• 成果类型: Article
• 署名作者: Li, Mengyao; Jiang, Zhenhuan; Xu, Xueqiang; Wu, Xinglong; Liu, Yun; Chen, Kexuan; Liao, Yuhan; Li, Wen; Wang, Xiao; Guo, Yuqing; Zhang, Bo; Wen, Lu; Kee, Kehkooi; Tang, Fuchou
• 署名单位: Peking University; Changping Laboratory; National Institute of Biological Sciences, Beijing; Peking University; Tsinghua University; Tsinghua University; Hebei Agricultural University; Shanxi Medical University
• 刊物名称: SCIENCE
• ISSN/ISSBN: 0036-9339
• DOI: 10.1126/science.adp4319
• 发表日期: 2025-03-28
• 关键词: transposable elements; fate decisions; x-chromosome; rna; transcription; expression; database; package; pluripotency; inactivation

摘要

In mammals, fertilized eggs undergo genome-wide epigenetic reprogramming to generate the organism. However, our understanding of epigenetic dynamics during preimplantation development at single-cell resolution remains incomplete. Here, we developed scNanoATAC-seq2, a single-cell assay for transposase-accessible chromatin using long-read sequencing for scarce samples. We present a detailed chromatin accessibility landscape of mouse preimplantation development, revealing distinct chromatin signatures in the epiblast, primitive endoderm, and trophectoderm during lineage segregation. Differences between zygotes and two-cell embryos highlight reprogramming in chromatin accessibility during the maternal-to-zygotic transition. Single-cell long-read sequencing enables in-depth analysis of chromatin accessibility in noncanonical imprinting, imprinted X chromosome inactivation, and low-mappability genomic regions, such as repetitive elements and paralogs. Our data provide insights into chromatin dynamics during mammalian preimplantation development and lineage differentiation.