scTAPS和scCAPS +在单细胞分辨率下直接和无亚硫酸盐的5-甲基胞嘧啶和5-羟甲基胞嘧啶测序。

IF 12.3 1区生物学 Q1 Agricultural and Biological Sciences

Genome Biology Pub Date : 2025-08-18 DOI:10.1186/s13059-025-03708-1

Xiufei Chen, Jingfei Cheng, Linzhen Kong, Xiao Shu, Haiqi Xu, Masato Inoue, Marion Silvana Fernández-Berrocal, Dagny Sanden Døskeland, Magnar Bjørås, Shivan Sivakumar, Yibin Liu, Jing Ye, Chun-Xiao Song

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引用次数: 0

摘要

我们提出了直接测序方法，scTAPS用于5-甲基胞嘧啶（5mC）和5-羟甲基胞嘧啶（5hmC）， scCAPS +专门用于5hmC，能够在单碱基分辨率和单细胞水平上定量检测5mC和5hmC。我们基于平板的方法可以精确地恢复CD8 + T细胞和小鼠胚胎干细胞中的5mC和5hmC图谱，绘制效率约为90%。值得注意的是，scCAPS +揭示了衰老小鼠海马神经元和非神经元细胞中5hmC的整体增加。我们的方法为无缝整合高通量单细胞多组学提供了强大的潜力，促进了未来特定生物过程中表观基因组动力学的研究。

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Direct and bisulfite-free 5-methylcytosine and 5-hydroxymethylcytosine sequencing at single-cell resolution with scTAPS and scCAPS + .

We present direct sequencing methodologies, scTAPS for 5-methylcytosine (5mC) and 5-hydroxymethylcytosine (5hmC) and scCAPS + specifically for 5hmC, enabling quantitative detection of 5mC and 5hmC at single-base resolution and single-cell level. Achieving approximately 90% mapping efficiency, our plate-based methods accurately recover 5mC and 5hmC profiles in CD8 + T and mouse embryonic stem cells. Notably, scCAPS + reveals a global increase in 5hmC across neuronal and non-neuronal cells in the hippocampus of aging mice. Our methods offer strong potential for seamless integration into high-throughput single-cell multi-omics, facilitating future investigations of epigenomic dynamics in specific biological processes.

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来源期刊

Genome Biology BIOTECHNOLOGY & APPLIED MICROBIOLOGY-GENETICS & HEREDITY

CiteScore

25.50

自引率

3.30%

发文量

审稿时长

14 weeks

期刊介绍： Genome Biology is a leading research journal that focuses on the study of biology and biomedicine from a genomic and post-genomic standpoint. The journal consistently publishes outstanding research across various areas within these fields. With an impressive impact factor of 12.3 (2022), Genome Biology has earned its place as the 3rd highest-ranked research journal in the Genetics and Heredity category, according to Thomson Reuters. Additionally, it is ranked 2nd among research journals in the Biotechnology and Applied Microbiology category. It is important to note that Genome Biology is the top-ranking open access journal in this category. In summary, Genome Biology sets a high standard for scientific publications in the field, showcasing cutting-edge research and earning recognition among its peers.